Appendix B

Hojas de datos en el campo

Por: Raymond L. Tremblay

La hoja de recolección de datos debería estar preparada antes de ir al campo y estar imprimido sobre papel que es impermeable y escribir con lápiz. Ese ultimo punto es bien importante ya que la gran mayoría de los bolígrafos son soluble en agua y si el papel se moja se puede perder sus datos. Considerando que estas hojas de datos pudiese ser usado como fuente de averiguar los datos por décadas en el futuro. RECUERDA que no se puede regresar en el tiempo para recoger los datos, IUD no tiene una maquina de regresar en el tiempo. Si Ud. tiene su hoja de datos en el laboratorio y se le cae la taza café y fue escrito con bolígrafo se puede perder los datos. No se arriesga!! Usa lápiz.

Antes de ir al campo es importante tener la lista completa de todos los individuos en la hoja de datos, ya que esto le ayuda asegurarse durante el muestreo que no se le olvida ningún individuo. Datos olvidado no se puede recuperar.

Puede usar papel Rite-in-Rain o papel de impresora normal y ponerlo en una bolsa de plástico. Si usa papel normal, se puede poner en una bolsa de plástico con un pedazo de cartón para que no se doble. Si se moja, se puede secar y no se pierde los datos. Mi sugerencia use papel Rite in the Rain y lápiz.

Hoja en blanco para llevarse

Hoja_de_campo %>% gt()
anio Número_de_Ind Etapa Cantidad_flores_abierta Cantidad_capullo Cantidad_Frutos Numero_Hojas Ancho_hoja_mm etc
2023 23001 ... ... ... ... ... ... ...
2023 23002 ... ... ... ... ... ... ...
2023 23003 ... ... ... ... ... ... ...
2024 23001 ... ... ... ... ... ... ...
2024 23002 ... ... ... ... ... ... ...
2024 24003 ... ... ... ... ... ... ...
2024 24004 ... ... ... ... ... ... ...
2024 24005 ... ... ... ... ... ... ...

Ejemplos de tablas de Datos

Usando ejemplo de Tremblay y su codificación

  • p == plantula.
  • j == juvenil
  • A0 == adulto non-reproductivo
  • A1 == adulto reproductivo
  • M = muerto

Hoja llena al final del muestreo

library(tidyverse)
library(gt)
Hoja_llena = tribble(
  ~Número_de_Ind, ~Etapa, ~Cantidad_flores_abierta, ~Cantidad_capullo, ~ Cantidad_Frutos, ~Numero_Hojas, ~Ancho_hoja_mm, ~etc,
  23001,"p",NA, NA,NA,NA,NA,NA,
  23002,"j",NA, NA,NA,2,10,NA,
  23003,"A1",5, 10,1, 5,32,NA,
  23004,"Ao",0, 0,0,2,14,NA,
  23005,"m",NA, NA,NA,NA,NA,NA,
  24006,"p",NA, NA,NA,NA,NA,NA,
  24007,"j",NA, NA,NA,1,7,NA,
  24008,"p",NA, NA,NA,NA,NA,NA,
  
)
Hoja_llena %>% gt()
Número_de_Ind Etapa Cantidad_flores_abierta Cantidad_capullo Cantidad_Frutos Numero_Hojas Ancho_hoja_mm etc
23001 p NA NA NA NA NA NA
23002 j NA NA NA 2 10 NA
23003 A1 5 10 1 5 32 NA
23004 Ao 0 0 0 2 14 NA
23005 m NA NA NA NA NA NA
24006 p NA NA NA NA NA NA
24007 j NA NA NA 1 7 NA
24008 p NA NA NA NA NA NA

Nota que solamente los individuos 23003 y 23004 son adultos, uno tiene flores, capullos y frutos y el otro nada. A todos los adultos hay que llenar la información, no dejarlo en blanco. Para las otras etapas, no es necesario llenar la mayoría de las columnas ya que para las plántulas y muertos no PUEDEN tener esas variables suplementaria, pero los juveniles, se puede llenar la cantidad de hojas y sus tamaño. Nota que el individuo 23005 se murió.

Almacenamiento de datos de forma digital

Esa misma estructura de recoger los dados puede ser utilizado para ponerlo en una hoja de MSExcel, Google Sheet o MacOS Numbers.

  • Es muy importante que haya dos hojas, una para los datos y otra para la metadata.
  • La metadata es la descripción de los datos, como se recogieron, donde, cuando, por quien, las unidades, objetivo de la investigación, etc.
  • En la hoja de datos, cada columna tiene información de solamente UNA variable y cada fila tiene información de solamente UN individuo. No debería tener las unidades indicado en las celdas de la hoja de datos, sino en la metadata o en nombre de la columna.
    • La primera fila tiene los nombres de las variables y la primera columna tiene los nombres de los individuos.
    • Los nombres de las columnas no pueden tener espacios, ni caracteres especiales, ni acentos, ni tildes, como en ñ.
    • Los nombres de los individuos no pueden tener espacios, ni caracteres especiales, ni acentos, ni tildes, como en ñ, Preferiblemente que sea un alfanumérico.
  • La hojas de datos preferiblemente se guarda en hoja de datos separados, como .csv, .xls, .xlsx, .ods, etc. La ventaja de usar .csv es que es un archivo de texto y se puede abrir en cualquier programa de hoja de datos. Ese formato .csv, comma seperated variable, es uno de los más viejo para almacenar datos, y es compatible con casi todos los programa de estadística. NUNCA guarda sus datos en un formato de programas especializados como SPSS, STATA, JMP, SAS, porque típicamente no se puede abrir en otros programas, y si no tiene (o pierda) la licencias se puede que no los podrán abrir en el futuro (experiencia personal).

Revisión: Enero 19, 2025

Acácio V, Holmgren M, Jansen PA, Schrotter O (2007) Multiple recruitment limitation causes arrested succession in mediterranean cork oak systems. Ecosystems 10:1220–1230.
Acevedo MA, Beaudrot L, Meléndez-Ackerman E, Tremblay R (2020) Local extinction risk under climate change in a neotropical asymmetrically dispersed epiphyte. Journal of Ecology 108:1553–1564.
Acevedo M, Fletcher R, Tremblay R, Melendez-Ackerman E (2015) Spatial asymmetries in connectivity influence colonization- extinction dynamics. Oecologia 179:415–424.
Ackerman JD, Sabat A, Zimmerman J (1996) Seedling establishment in an epiphytic orchid: An experimental study of seed limitation. Oecologia 106:192–198.
Ackerman J, Tremblay R, Pérez M, Madden H, Bechtold M, Boeken M (2020) Small populations on small islands: What chance does an orchid have? International Journal of Plant Sciences 181:667–685.
Adler PB, Salguero-Gómez R, Compagnoni A, et al. (2014) Functional traits explain variation in plant life history strategies. Proceedings of the National Academy of Sciences 111:740–745.
Aide TM, Clark ML, Grau HR, et al. (2013) Deforestation and reforestation of latin america and the caribbean (2001–2010). Biotropica 45:262–271.
Alahuhta K, Crone E, Ettinger A, Hens H, Jäkäläniemi A, Tuomi J (2017) Instant death, slow death and the consequences of assumptions about prolonged dormancy for plant population dynamics. Journal of Ecology 105:471–483.
Alexander C, Alexander I (1984) Seasonal changes in populations of the orchid goodyera repens br. And in its mycorrhizal development. Transactions of the botanical society of edinburgh. Taylor & Francis, 219–227.
Alves JM, Carneiro M, Day JP, et al. (2022) A single introduction of wild rabbits triggered the biological invasion of australia. Proceedings of the National Academy of Sciences 119:e2122734119.
Anderson DR, Burnham KP (2002) Avoiding pitfalls when using information-theoretic methods. The Journal of wildlife management 912–918.
Anghelescu NE, Vafaee Y, Ahmadzadeh K, Chen J-T (2023) Asymbiotic seed germination in terrestrial orchids: Problems, progress, and prospects. Advances in Orchid Biology, Biotechnology and Omics 221–260.
Antonini Y, Dirzo R, Cassia Quitete-Portela R de (2020) Are protected populations of two globular cactus species facing a demographic explosion or just a ‘bonanza’ year? Journal of Arid Environments 179:104192.
Archer CR, Paniw M, Vega-Trejo R, Sepil I (2022) A sex skew in life-history research: The problem of missing males. Proceedings of the Royal Society B 289:20221117.
Arditti J, Ghani A (2000) Numerical and physical properties of orchid seeds and their biological implications (vol 145, pg 367, 2000). New Phytologist 146:569–569.
Armbruster P, Lande R (1993) A population viability analysis for african elephant (loxodonta africana): How big should reserves be? Conservation Biology 7:602–610.
Arroyo-Cosultchi G, Golubov J, Solórzano JV, Mandujano MC (2022) Prescriptions for the control of a clonal invasive species using demographic models. Plants 11:689.
Aucencia E-L, Anne D (2024) Acclimatization with endophytic fungi and reintroduction of guarianthe skinneri (bateman) dressler & WE higgins, a threatened, native orchid of cultural value in southern mexico. Journal for Nature Conservation 78:126573.
Bacaër N (2011) A short history of mathematical population dynamics. Springer.
Baden HM, Roach D, Schweingruber FH, Reitzel K, Lundgreen K, Dahlgren JP (2021) The effects of age on the demography of a perennial plant depend on interactions with size and environment. Journal of Ecology 109:1068–1077.
Baker JD, Tate GR (1867) A new flora of northumberland and durham. Tyneside Naturalists’ Field Club, London.
Balducci MG, Calevo J, Duffy KJ (2024) Narrow mycorrhizal specialization and its effect on early development in the mediterranean orchid orchis italica. Botanical Journal of the Linnean Society boae018.
Batty A, Brundrett M, Dixon K, Sivasithamparam K (2006) In situ symbiotic seed germination and propagation of terrestrial orchid seedlings for establishment at field sites. Australian Journal of Botany 54:375–381.
Baudisch A, Salguero-Gómez R, Jones OR, et al. (2013) The pace and shape of senescence in angiosperms. Journal of Ecology 101:596–606.
Beissinger SR, Westphal MI (1998) On the use of demographic models of population viability in endangered species management. The Journal of wildlife management 821–841.
Bernard C, Santos GS, Deere JA, et al. (2023) MOSAIC-a unified trait database to complement structured population models. Scientific Data 10:335.
Berry EJ, Cleavitt NL (2021) Population dynamics and comparative demographics in sympatric populations of the round-leaved orchids platanthera macrophylla and p. orbiculata. Population Ecology 63:274–289.
Bierzychudek P (1999) Looking backwards: Assessing the projections of a transition matrix model. Ecological Applications 9:1278–1287.
Bock MJ, Jarvis GC, Corey EL, Stone EE, Gribble KE (2019) Maternal age alters offspring lifespan, fitness, and lifespan extension under caloric restriction. Scientific Reports 9:3138.
Borges JL (1999) Collected fictions. Penguin.
Borrero H, Oviedo-Prieto R, Alvarez JC, Ticktin T, Cisneros M, Liu H (2023) Populations of a tropical epiphytic orchid are destabilized in its peripheral range by hurricane and an exotic herbivore. Ecosphere 14:e4355.
Boukal DS, Berec L (2002) Single-species models of the allee effect: Extinction boundaries, sex ratios and mate encounters. Journal of theoretical biology 218:375–394.
Bradshaw ME, Doody J (1978) Plant population studies and their relevance to nature conservation. Biological Conservation 14:223–242.
Bruijning M, Jongejans E, Turcotte MM (2019) Demographic responses underlying eco-evolutionary dynamics as revealed with inverse modelling. journal of animal ecology 88:768–779.
Buckley YM, Ramula S, Blomberg SP, et al. (2010) Causes and consequences of variation in plant population growth rate: A synthesis of matrix population models in a phylogenetic context. Ecology letters 13:1182–1197.
Bustamante J (1996) Population viability analysis of captive and released bearded vulture populations. Conservation Biology 10:822–831.
Callaway RM, Reinhart KO, Moore GW, Moore DJ, Pennings SC (2002) Epiphyte host preferences and host traits: Mechanisms for species-specific interactions. Oecologia 132:221–230.
Calvo RN (1993) Evolutionary demography of orchids: Intensity and frequency of pollination and the cost of fruiting. Ecology 74:1033–1042.
Capdevila P, Stott I, Beger M, Salguero-Gómez R (2020) Towards a comparative framework of demographic resilience. Trends in Ecology & Evolution 35:776–786.
Carey P (1998) Modelling the spread of himantoglossum hircinum (l.) spreng. At a site in the south of england. Botanical Journal of the Linnean Society 126:159–172.
Caswell H (1989) Analysis of life table response experiments i. Decomposition of effects on population growth rate. Ecological Modelling 46:221–237.
Caswell H (2000) Matrix population models. Sinauer Sunderland, MA.
Caswell H (2001) Matrix population models: Construction, analysis, and interpretation. 2nd ed. Sunderland, Massachusetts, USA: Sinauer Associates.
Caswell H (2009) Stage, age and individual stochasticity in demography. Oikos 118:1763–1782.
Caswell H (2010) Life table response experiment analysis of the stochastic growth rate. Journal of Ecology 98:324–333.
Caswell H (2011) Beyond r 0: Demographic models for variability of lifetime reproductive output. PloS One 6:e20809.
Caswell H (2012) Matrix models and sensitivity analysis of populations classified by age and stage: A vec-permutation matrix approach. Theoretical Ecology 5:403–417.
Caswell H (2019a) The formal demography of kinship: A matrix formulation. Demographic Research 41:679–712.
Caswell H (2019b) Sensitivity analysis: Matrix methods in demography and ecology. Springer Nature.
Caswell H (2020) The formal demography of kinship ii. Demographic Research 42:1097–1144.
Caswell H, Brault S, Read AJ, Smith TD (1998) Harbor porpoise and fisheries: An uncertainty analysis of incidental mortality. Ecological Applications 8:1226–1238.
Caswell H, Daalen S van (2021) Healthy longevity from incidence-based models. Demographic Research 45:397–452.
Caswell H, Salguero-Gómez R (2013) Age, stage and senescence in plants. Journal of Ecology 101:585–595.
Caswell H, Vries C de, Hartemink N, Roth G, Daalen SF van (2018) Age\(\times\) stage-classified demographic analysis: A comprehensive approach. Ecological monographs 88:560–584.
Catling PM (1986) Epiphytic orchids in a belizean grapefruit orchard: Distribution, colonization, and association. Lindleyana 1:194–202.
Chapagain DJ, Meilby H, Baniya CB, Budha-Magar S, Ghimire SK (2021) Illegal harvesting and livestock grazing threaten the endangered orchid dactylorhiza hatagirea (d. Don) soó in nepalese himalaya. Ecology and evolution 11:6672–6687.
Che-Castaldo J, Havercamp K, Watanuki K, Matsuzawa T, Hirata S, Ross SR (2021) Comparative survival analyses among captive chimpanzees (pan troglodytes) in america and japan. PeerJ 9:e11913.
Che-Castaldo J, Jones OR, Kendall BE, et al. (2020) Comments to ‘persistent problems in the construction of matrix population models’.
Childs DZ, Sheldon BC, Rees M (2016) The evolution of labile traits in sex-and age-structured populations. Journal of Animal Ecology 85:329–342.
Choquet R, Rouan L, Pradel R (2009) Program e-SURGE: A software application for fitting multievent models. Modeling demographic processes in marked populations 845–865.
CL S (2016) Conservation genetics and population viability of the endangered swamp orchid phaius australis (orchidaceae) in a changing world. PhD thesis. University of the Sunshine Coast.
Cleavitt NL, Berry EJ, Hautaniemi J, Fahey TJ (2017) Life stages, demographic rates, and leaf damage for the round-leaved orchids, platanthera orbiculata (pursh.) lindley and p. macrophylla (goldie) PM brown in a northern hardwood forest in new hampshire, USA. Botany 95:61–71.
Clubb R, Mason G (2003) Captivity effects on wide-ranging carnivores. Nature 425:473–474.
Clubb R, Rowcliffe M, Lee P, Mar KU, Moss C, Mason GJ (2009) Fecundity and population viability in female zoo elephants: Problems and possible solutions. Animal Welfare 18:237–247.
Coates F, Duncan M (2009) Demographic variation between populations of caladenia orientalis–a fire-managed threatened orchid. Australian Journal of Botany 57:326–339.
Coates F, Lunt ID, Tremblay RL (2006) Effects of disturbance on population dynamics of the threatened orchid prasophyllum correctum DL jones and implications for grassland management in south-eastern australia. Biological Conservation 129:59–69.
Cochran ME, Ellner S (1992) Simple methods for calculating age-based life history parameters for stage-structured populations: Ecological archives M062-002. Ecological monographs 62:345–364.
Compagnoni A, Steigman K, Miller TE (2017) Can’t live with them, can’t live without them? Balancing mating and competition in two-sex populations. Proceedings of the Royal Society B: Biological Sciences 284:20171999.
Conde DA, Staerk J, Colchero F, et al. (2019) Data gaps and opportunities for comparative and conservation biology. Proceedings of the National Academy of Sciences 116:9658–9664.
Connolly J, Wayne P (1996) Asymmetric competition between plant species. Oecologia 108:311–320.
Cooch EG, Gauthier G, Rockwell RF (2003) Apparent differences in stochastic growth rates based on timing of census: A cautionary note. Ecological Modelling 159:133–143.
Cook RE (1983) Clonal plant populations: A knowledge of clonal structure can affect the interpretation of data in a broad range of ecological and evolutionary studies. American scientist 71:244–253.
Coste CF, Pavard S (2020) Analysis of a multitrait population projection matrix reveals the evolutionary and demographic effects of a life history trade-off. Ecological Modelling 418:108915.
Coulson T, Catchpole EA, Albon SD, et al. (2001) Age, sex, density, winter weather, and population crashes in soay sheep. Science 292:1528–1531.
Crain B, Tremblay R, Ferguson J (2019) Sheltered from the storm? Population viability analysis of a rare endemic under periodic catastrophe regimes. Population Ecology 61:74–92.
Crawley MJ (1990) The population dynamics of plants. Philosophical Transactions of the Royal Society of London Series B: Biological Sciences 330:125–140.
Cribb PJ (1999) II MORPHOLOGY. Genera Orchidacearum: Volume 1: Apostasioideae and Cypripedioideae 11:12.
Crone EE, Menges ES, Ellis MM, et al. (2011) How do plant ecologists use matrix population models? Ecology letters 14:1–8.
Crouse DT, Crowder LB, Caswell H (1987) A stage-based population model for loggerhead sea turtles and implications for conservation. Ecology 68:1412–1423.
Crowder LB, Crouse DT, Heppell SS, Martin TH (1994) Predicting the impact of turtle excluder devices on loggerhead sea turtle populations. Ecological applications 4:437–445.
Cushing JM (2003) Chaos in ecology: Experimental nonlinear dynamics. Elsevier.
Daalen SF van, Caswell H (2017) Lifetime reproductive output: Individual stochasticity, variance, and sensitivity analysis. Theoretical Ecology 10:355–374.
Daalen SF van, Hernández CM, Caswell H, Neubert MG, Gribble KE (2022) The contributions of maternal age heterogeneity to variance in lifetime reproductive output. The American Naturalist 199:603–616.
Darwin C (1877) The various contrivances by which orchids are fertilised by insects. John Murray.
Davis KJ (2022) Managed culls mean extinction for a marine mammal population when combined with extreme climate impacts. Ecological Modelling 473:110122.
Davison R, Jacquemyn H, Adriaens D, Honnay O, De Kroon H, Tuljapurkar S (2010) Demographic effects of extreme weather events on a short-lived calcareous grassland species: Stochastic life table response experiments. Journal of Ecology 98:255–267.
Davison R, Nicole F, Jacquemyn H, Tuljapurkar S (2013) Contributions of covariance: Decomposing the components of stochastic population growth in cypripedium calceolus. The American Naturalist 181:410–420.
De Kroon H, Van Groenendael J, Ehrlén J (2000) Elasticities: A review of methods and model limitations. Ecology 81:607–618.
De Magalhaes J, Costa (2009) A database of vertebrate longevity records and their relation to other life-history traits. Journal of evolutionary biology 22:1770–1774.
Demetrius L (1992) Growth rate, population entropy, y evolutionary dynamics. Theoretical Population Biology 41:208–236.
Dibble AC, Gawler SC, Wright WA, et al. (2019) Demography of the rare orchid, isotria medeoloides (orchidaceae) and its response to a canopy thinning treatment. Rhodora 121:67–107.
Doak DF, Diane Thomson, Jules ES (2002) Population viability analysis for plants: Understanding the demographic consequences of seed banks for population health. Population viability analysis 312.
Doak DF, Morris WF, Pfister C, Kendall BE, Bruna EM (2005) Correctly estimating how environmental stochasticity influences fitness and population growth. The American Naturalist 166:E14–E21.
Dressler RL (1993) Phylogeny and classification of the orchid family. Cambridge University Press.
Drugs UNO on, Crime (2024) World wildlife crime report 2024: Trafficking in protected species. UN.
Earl JE (2019) Evaluating the assumptions of population projection models used for conservation. Biological conservation 237:145–154.
Ebert T (1999) Plant and animal populations. Methods in demography.
Ellner SP, Childs DZ, Rees M, et al. (2016) Data-driven modelling of structured populations. A practical guide to the Integral Projection Model Cham: Springer.
Emery SM, Gross KL (2005) Effects of timing of prescribed fire on the demography of an invasive plant, spotted knapweed centaurea maculosa. Journal of Applied Ecology 42:60–69.
Emeterio-Lara A, Garcı́a-Franco JG, Hernández-Apolinar M, Toledo-Hernández VH, Valencia-Dı́az S, Flores-Palacios A (2021) Does extraction of orchids affect their population structure? Evidence from populations of laelia autumnalis (orchidaceae). Forest Ecology and Management 480:118667.
Emeterio-Lara A, Palma-Linares V, Vázquez-Garcı́a LM, Mejı́a-Carranza J (2016) Usos y comercialización de orquı́deas silvestres en la región sur del estado de méxico. Polibotánica 197–214.
Ezard TH, Bullock JM, Dalgleish HJ, et al. (2010) Matrix models for a changeable world: The importance of transient dynamics in population management. Journal of Applied Ecology 47:515–523.
Falcón W, Ackerman JD, Tremblay R (2017) Quantifying how acquired interactions with native and invasive insects influence population growth rates of a non-indigenous plant. Biological Invasions 19:895–911.
Farfán Camargo J (2008) Estrategias reproductivas de la orquídea epidendrum xanthinumlindl., en la cordillera occidental, valle del cauca. Master’s thesis. Universidad Nacional de Colombia.
Fenner M (2017) Ecology of seed banks. Seed development and germination. Routledge, 507–528.
Ferreira MS, Kajin M, Cerqueira R, Vieira MV (2016) Marsupial population dynamics in a tropical rainforest: Intraspecific competition and nonlinear effect of rainfall. Journal of Mammalogy 97:121–127.
Forsman E, Sovern S, Seaman DE, Maurice K, Taylor M, Zisa J (1996) Demography of the northern spotted owl on the olympic peninsula and east slope of the cascade range, washington. Studies in Avian Biology 17:21–30.
Franco M, Silvertown J (1996) Life history variation in plants: An exploration of the fast-slow continuum hypothesis. Philosophical Transactions of the Royal Society of London Series B: Biological Sciences 351:1341–1348.
Franco M, Silvertown J (2004) A comparative demography of plants based upon elasticities of vital rates. Ecology 85:531–538.
Freckleton R, Watkinson A (2001) Asymmetric competition between plant species. Functional Ecology 15:615–623.
Fricke EC, Tewksbury JJ, Rogers HS (2019) Linking intra-specific trait variation and plant function: Seed size mediates performance tradeoffs within species. Oikos 128:1716–1725.
Fujiwara M, Caswell H (2001) Demography of the endangered north atlantic right whale. Nature 414:537–541.
Gabriel A, John R, et al. (2017) On the rarity of dioecy in flowering plants. Molecular ecology 26.
Gaoue OG, Ticktin T (2010) Effects of harvest of nontimber forest products and ecological differences between sites on the demography of african mahogany. Conservation Biology 24:605–614.
García-Soriano R (2003) Demografía, manejo y conservación de artorima erubescens en oaxaca, orquídea endémica del sur de méxico.
Garcı́a MB, Ehrlén J (2002) Reproductive effort and herbivory timing in a perennial herb: Fitness components at the individual and population levels. American Journal of Botany 89:1295–1302.
Garcı́a MB, Goni D, Guzmán D (2010) Living at the edge: Local versus positional factors in the long-term population dynamics of an endangered orchid. Conservation biology 24:1219–1229.
Garcı́a-Soriano R (2003) Demografı́a, manejo y conservación de artorima erubescens en oaxaca, orquı́dea endémica del sur de méxico. Master’s thesis. Universidad Autonoma de Yucatan.
Gascoigne SJL, Rolph S, Sankey D, et al. (2023) A standard protocol to report discrete stage-structured demographic information. Methods in Ecology and Evolution.
Gatsuk L, Smirnova O, Vorontzova L, Zaugolnova L, Zhukova L (1980) Age states of plants of various growth forms: A review. The Journal of Ecology 675–696.
Gerstner K, Moreno-Mateos D, Gurevitch J, et al. (2017) Will your paper be used in a meta-analysis? Make the reach of your research broader and longer lasting. Methods in Ecology and Evolution 8:777–784.
Gontijo LM, Carvalho RM (2020) Using life stage-structured matrix models to determine natural enemy: Pest release ratios for augmentative biological control. Journal of Applied Entomology 144:364–372.
González-Hernández E (2009) Dinámica de las poblaciones estructuradas en clases de vida de dos especies de la familia orchidaceae: Broughtonia cubensis (lindley) cogniaux y dendrophylax lindenii (lindley) bentham et rolfe, en el cabo san antonio, península de guanahacabibes, CUBA. Modelos matriciales de proyección lineal. PhD thesis. Universidad de ALicante, Spain.
González-Orellana N, Mendoza AS, Tremblay R, Ackerman J (2024) Host suitability for germination differs from that of later stages of development in a rare epiphytic orchid. Lankesteriana: International Journal on Orchidology 93–114.
Gotelli NJ, Ellison AM (2006) Forecasting extinction risk with nonstationary matrix models. Ecological Applications 16:51–61.
Gould WA, Wadsworth FH, Quiñones M, Fain SJ, Álvarez-Berrı́os NL (2017) Land use, conservation, forestry, and agriculture in puerto rico. Forests 8:242.
Gregg KB (1989) Reproductive biology of the orchid cleistes divaricata (l.) ames var. Bifaria fernald growing in a west virginia meadow. Castanea 57–78.
Gregg KB (1991) Variation in behaviour of four populations of the orchid cleistes divaricata, an assessment using transition matriz models. In TCE Wells and JH Willems (eds). Population ecology of terrestrial orchids. SPB Academic Publishing bv, The Hague, 139–159.
Gregg KB, Kéry M (2006) Comparison of size vs. Life-state classification in demographic models for the terrestrial orchid cleistes bifaria. Biological Conservation 129:50–58.
Gremer JR, Sala A (2013) It is risky out there: The costs of emergence and the benefits of prolonged dormancy. Oecologia 172:937–947.
Gurevitch J, Koricheva J, Nakagawa S, Stewart G (2018) Meta-analysis and the science of research synthesis. Nature 555:175–182.
Hágsater E (2005) Orchids of mexico. Productos Farmacéuticos, SA de CV.
Halpern SL, Underwood N (2006) Approaches for testing herbivore effects on plant population dynamics. Journal of Applied Ecology 43:922–929.
Hansen TF, Stenseth NC, Henttonen H (1999) Multiannual vole cycles and population regulation during long winters: An analysis of seasonal density dependence. The American Naturalist 154:129–139.
Hanski I (1999) Metapopulation ecology. Oxford University Press.
Harper JL, et al. (1977) Population biology of plants. Population biology of plants.
Harris GM, Butler MJ, Stewart DR, Cain III JW (2022) The abundance and persistence of caprinae populations. Scientific Reports 12:13807.
Hartemink N, Missov TI, Caswell H (2017) Stochasticity, heterogeneity, and variance in longevity in human populations. Theoretical Population Biology 114:107–116.
Hart-Fredeluces G, Ticktin T, Lake FK (2021) Simulated indigenous fire stewardship increases the population growth rate of an understorey herb. Journal of Ecology 109:1133–1147.
Hastings A, Abbott KC, Cuddington K, et al. (2021) Effects of stochasticity on the length and behaviour of ecological transients. Journal of the Royal Society Interface 18:20210257.
Healy K, Ezard TH, Jones OR, Salguero-Gómez R, Buckley YM (2019) Animal life history is shaped by the pace of life and the distribution of age-specific mortality and reproduction. Nature ecology & evolution 3:1217–1224.
Heggerud C, Abbott K, Hastings A (2023) Transient dynamics. Oxford University Press.
Hens H, Pakanen V-M, Jäkäläniemi A, Tuomi J, Kvist L (2017) Low population viability in small endangered orchid populations: Genetic variation, seedling recruitment and stochasticity. Biological Conservation 210:174–183.
Hernández-Apolinar M (1992) Dinámica poblacional de laelia speciosa (HBK) schltr. (orchidaceae). Master’s thesis.
Hernández-Apolinar M, Gutiérrez-Paredes C, Sánchez-Gallen I, Aguirre E, Pérez-Garcı́a E (2012) Ecological aspects of cypripedium irapeanum la llave & lex., an endangered mexican orchid species. SOA Newsletter 13:1–5.
Hernández CM, Daalen SF van, Caswell H, Neubert MG, Gribble KE (2020) A demographic and evolutionary analysis of maternal effect senescence. Proceedings of the National Academy of Sciences 117:16431–16437.
Hernández CM, Ellner SP, Adler PB, Hooker G, Snyder RE (2023) An exact version of life table response experiment analysis, and the r package exactLTRE. Methods in Ecology and Evolution 14:939–951.
Hernández CM, Ellner SP, Snyder RE, Hooker G (2024) The natural history of luck: A synthesis study of structured population models. Ecology Letters 27:e14390.
Herrera CM (2009) Multiplicity in unity: Plant subindividual variation and interactions with animals. University of Chicago Press.
Hiernaux P, Diarra L, Trichon V, Mougin E, Soumaguel N, Baup F (2009) Woody plant population dynamics in response to climate changes from 1984 to 2006 in sahel (gourma, mali). Journal of Hydrology 375:103–113.
Hinsley A, De Boer HJ, Fay MF, et al. (2018) A review of the trade in orchids and its implications for conservation. Botanical Journal of the Linnean Society 186:435–455.
Hodgson DJ, Townley S (2004) Methodological insight: Linking management changes to population dynamic responses: The transfer function of a projection matrix perturbation. Journal of Applied Ecology 41:1155–1161.
Holttum RE (1995) Growth-habitat of monocotyledons-variations on a theme. Phytomorphology 5:399–413.
Horvitz C, Schemske DW, Caswell H (1997) The relative ‘importance’ of life-history stages to population growth: Prospective and retrospective analyses. Structured-population models in marine, terrestrial, and freshwater systems. Springer, 247–271.
Hunter CM, Caswell H (2005) Selective harvest of sooty shearwater chicks: Effects on population dynamics and sustainability. Journal of animal ecology 589–600.
Hunter CM, Caswell H, Runge MC, Regehr EV, Amstrup SC, Stirling I (2010) Climate change threatens polar bear populations: A stochastic demographic analysis. Ecology 91:2883–2897.
Hutchings MJ (1987) The population biology of the early spider orchid, ophrys sphegodes mill. I. A demographic study from 1975 to 1984. The Journal of Ecology 711–727.
Hutchings M (2010) The population biology of the early spider orchid ophrys sphegodes mill. III. Demography over three decades. Journal of Ecology 98:867–878.
Iralu V, Barbhuyan HSA, Upadhaya K (2019) Ecology of seed germination in threatened trees: A review. Energy, Ecology and Environment 4:189–210.
Iriondo Alegria J, Albert Gamboa M, Gimenez Benavides L, Dominguez Lozano F, Escudero Alcantara A (2009) Poblaciones en peligro: Viabilidad demográfica de la flora vascular amenazada de espana. Direccion General de Medio Ambiente y Politica Forestal.
Jacquemyn H, Brys R, Davison R, Tuljapurkar S, Jongejans E (2012) Stochastic LTRE analysis of the effects of herbivory on the population dynamics of a perennial grassland herb. Oikos 121:211–218.
Jacquemyn H, Brys R, Hermy M, Willems JH (2007) Long-term dynamics and population viability in one of the last populations of the endangered spiranthes spiralis (orchidaceae) in the netherlands. Biological Conservation 134:14–21.
Jacquemyn H, Brys R, Jongejans E (2010) Seed limitation restricts population growth in shaded populations of a perennial woodland orchid. Ecology 91:119–129.
Jäkäläniemi A, Crone EE, Närhi P, Tuomi J (2011) Orchids do not pay costs at emergence for prolonged dormancy. Ecology 92:1538–1543.
James TD, Salguero-Gómez R, Jones OR, Childs DZ, Beckerman AP (2021) Bridging gaps in demographic analysis with phylogenetic imputation. Conservation Biology 35:1210–1221.
Janovskỳ Z, Herben T, Klimešová J (2017) Accounting for clonality in comparative plant demography–growth or reproduction? Folia Geobotanica 52:433–442.
Jelbert K, Buss D, McDonald J, et al. (2019) Demographic amplification is a predictor of invasiveness among plants. Nature Communications 10:5602.
Jenouvrier S, Aubry LM, Barbraud C, Weimerskirch H, Caswell H (2018) Interacting effects of unobserved heterogeneity and individual stochasticity in the life history of the southern fulmar. Journal of Animal Ecology 87:212–222.
Jenouvrier S, Caswell H, Barbraud C, Weimerskirch H (2010) Mating behavior, population growth, and the operational sex ratio: A periodic two-sex model approach. The American Naturalist 175:739–752.
Jenouvrier S, Holland M, Stroeve J, et al. (2012) Effects of climate change on an emperor penguin population: Analysis of coupled demographic and climate models. Global Change Biology 18:2756–2770.
Jenouvrier S, Long MC, Coste CF, et al. (2022) Detecting climate signals in populations across life histories. Global change biology 28:2236–2258.
Jepson J (2000) The tree climber’s companion. Beaver Tree Pub, Longville, MN USA.
Jia P, Lu L, Chen X, et al. (2016) A climate-driven mechanistic population model of aedes albopictus with diapause. Parasites & vectors 9:1–15.
Jiang S, Jaggi H, Zuo W, Oli MK, Gaillard J-M, Tuljapurkar S (2020) Life-history dynamics: Damping time, demographic dispersion and generation time. bioRxiv 2020–12.
Jiménez-Valdés M, Godı́nez-Alvarez H, Caballero J, Lira R (2010) Population dynamics of agave marmorata roezl. Under two contrasting management systems in central mexico. Economic Botany 64:149–160.
Johansson D (1974) Ecology of vascular epiphytes in west african rain forest. PhD thesis. Sv. växtgeografiska sällsk.
Johnson DJ, Needham J, Xu C, et al. (2018) Climate sensitive size-dependent survival in tropical trees. Nature Ecology & Evolution 2:1436–1442.
Jones OR, Barks P, Stott IM, James TD, Levin SC, Petry WK, Capdevila P, Che-Castaldo J, Jackson J, Römer G, Schuette C, et al. (2022) Rcompadre and rage - two R packages to facilitate the use of the COMPADRE and COMADRE databases and calculation of life history traits from matrix population models. Methods in Ecology and Evolution 13:770–781.
Jones O, Barks P, Stott I, James T, Levin S, Petry W, Capdevila P, Che-Castaldo J, Jackson J, Römer G, others (2022) Rcompadre and rage—two r packages to facilitate the use of the COMPADRE and COMADRE databases and calculation of life-history traits from matrix population models. Methods in Ecology and Evolution 13:770–781.
Jones FA, Hubbell SP (2006) Demographic spatial genetic structure of the neotropical tree, jacaranda copaia. Molecular ecology 15:3205–3217.
Jones OR, Scheuerlein A, Salguero-Gómez R, et al. (2014) Diversity of ageing across the tree of life. Nature 505:169–173.
Jouvet L, Rodrı́guez-Rojas A, Steiner UK (2018) Demographic variability and heterogeneity among individuals within and among clonal bacteria strains. Oikos 127:728–737.
Juárez L, Montaña C, Franco M (2014) The viability of two populations of the terrestrial orchid cyclopogon luteoalbus in a fragmented tropical mountain cloud forest: Dormancy delays extinction. Biological conservation 170:162–168.
Kendall BE, Fujiwara M, Diaz-Lopez J, Schneider S, Voigt J, Wiesner S (2019) Persistent problems in the construction of matrix population models. Ecological modelling 406:33–43.
Kéry M, Gregg KB (2004) Demographic analysis of dormancy and survival in the terrestrial orchid cypripedium reginae. Journal of Ecology 92:686–695.
Keyfitz N (1968) Changing vital rates y age distributions. Population Studies 22:235–251.
Kim Y, Kang K-W, Kim K-J (2016) Restoration of endangered orchid species, dendrobium moniliforme (l.) sw.(orchidaceae) in korea. Korean Journal of Plant Taxonomy 46:256–266.
Kindlmann JHW Pavel Willems (2002) Trends and fluctuations and underlying mechanisms in terrestrial orchid populations. Leiden, The Netherlands: Backhuys Publishers.
Kindlmann P, Meléndez-Ackerman EJ, Tremblay R (2014) Disobedient epiphytes: Colonization and extinction rates in a metapopulation of lepanthes rupestris (orchidaceae) contradict theoretical predictions based on patch connectivity. Botanical Journal of the Linnean Society 175:598–606.
Klepac P, Caswell H (2011) The stage-structured epidemic: Linking disease and demography with a multi-state matrix approach model. Theoretical Ecology 4:301–319.
Koop AL, Horvitz CC (2005) Projection matrix analysis of the demography of an invasive, nonnative shrub (ardisia elliptica). Ecology 86:2661–2672.
Kroon H de, Plaisier A, Groenendael J van, Caswell H (1986) Elasticity: The relative contribution of demographic parameters to population growth rate. Ecology 67:1427–1431.
Kull T (1995) Genet and ramet dynamics of cypripedium calceolus in different habitats. Abstracta Botanica 95–104.
Larson SS, Batson WT (1978) The vegetation of vertical rock faces in pickens and greenville counties, south carolina. Castanea 255–260.
Lawler RR, Caswell H, Richard AF, Ratsirarson J, Dewar RE, Schwartz M (2009) Demography of verreaux’s sifaka in a stochastic rainfall environment. Oecologia 161:491–504.
Lebreton J-D, Burnham KP, Clobert J, Anderson DR (1992) Modeling survival and testing biological hypotheses using marked animals: A unified approach with case studies. Ecological monographs 62:67–118.
Lefkovitch LP (1965) The study of population growth in organisms grouped by stages. Biometrics 1–18.
Leslie PH (1945) On the use of matrices in certain population mathematics. Biometrika 33:183–212.
Levin L, Caswell H, Bridges T, DiBacco C, Cabrera D, Plaia G (1996) Demographic responses of estuarine polychaetes to pollutants: Life table response experiments. Ecological Applications 6:1295–1313.
Levin SC, Evers S, Potter T, et al. (2022) Rpadrino: An r package to access and use PADRINO, an open access database of integral projection models. Methods in Ecology and Evolution 13:1923–1929.
Light MH, MacConaill M (2006) Appearance and disappearance of a weedy orchid, epipactis helleborine. Folia Geobotanica 41:77–93.
Li W-H, Ju Y-R, Liao C-M, Liao VH-C (2014) Assessment of selenium toxicity on the life cycle of caenorhabditis elegans. Ecotoxicology 23:1245–1253.
Lindenmayer DB, Possingham HP (1996) Ranking conservation and timber management options for leadbeater’s possum in southeastern australia using population viability analysis. Conservation Biology 10:235–251.
Lind H, Franzén M, Pettersson B, Anders Nilsson L (2007) Metapopulation pollination in the deceptive orchid anacamptis pyramidalis. Nordic Journal of Botany 25:176–182.
Li S-L, Ramula S (2015) Demographic strategies of plant invaders in temporally varying environments. Population ecology 57:373–380.
Ludwig D (1999) Is it meaningful to estimate a probability of extinction? Ecology 80:298–310.
Luzuriaga AL, Escudero A (2008) What determines emergence and net recruitment in an early succession plant community? Disentangling biotic and abiotic effects. Journal of Vegetation Science 19:445–456.
Maldonado Flores C (2005) Patrón de crecimiento y reproducción de la orquı́dea epidendrum xanthinum lindl. En la cordillera occidental, valle del cauca. Master’s thesis. Instituto Politecnico Nacional, Santa Cruz Xoxocotlán, Oaxaca.
Martı́nez-Villegas JA, Pisanty I, Martorell C, et al. (2024) Estimation of demographic parameters of some plant species accounting for imperfect detection probabilities. Population Ecology 66:22–38.
McClaran MP, Sundt PC (1992) Population dynamics of the rare orchid, spiranthes delitescens. The Southwestern Naturalist 37:299–303.
McDonald JL, Stott I, Townley S, Hodgson DJ (2016) Transients drive the demographic dynamics of plant populations in variable environments. Journal of Ecology 104:306–314.
McGraw JB, Caswell H (1996) Estimation of individual fitness from life-history data. The American Naturalist 147:47–64.
McMahon SM, Metcalf C (2008) Transient sensitivities of non-indigenous shrub species indicate complicated invasion dynamics. Biological Invasions 10:833–846.
Mehrhoff LA (1989) The dynamics of declining populations of an endangered orchid, isotoria medeoloides. Ecology 70:783–786.
Miller TE, Compagnoni A (2022) Two-sex demography, sexual niche differentiation, and the geographic range limits of texas bluegrass (poa arachnifera). The American Naturalist 200:17–31.
Miriti MN, Joseph Wright S, Howe HF (2001) The effects of neighbors on the demography of a dominant desert shrub (ambrosia dumosa). Ecological Monographs 71:491–509.
Mitchell-Olds T (1987) Analysis of local variation in plant size. Ecology 68:82–87.
Moles AT, Westoby M (2006) Seed size and plant strategy across the whole life cycle. Oikos 113:91–105.
Mondragón D (2009) Population viability analysis for guarianthe aurantiaca, an ornamental epiphytic orchid harvested in southeast méxico. Plant species biology 24:35–41.
Mondragón Chaparro DM, Valverde Valdés MT, Hernández Apolinar M, et al. (2015) Population ecology of epiphytic angiosperms: A review.
Mondragón D, Elliott DD (2013) The population dynamics of epiphytic orchids: A review and methodological guide. Treetops at Risk: Challenges of Global Canopy Ecology and Conservation 377–385.
Mondragón D, Maldonado C, Aguilar-Santelises R (2007) Life history and demography of a twig epiphyte: A case study of erycina crista-galli (orchidaceae). Selbyana 137–144.
Morris WF, Doak DF, et al. (2002) Quantitative conservation biology.
Namkoong G, Roberds J (1974) Extinction probabilities and the changing age structure of redwood forests. The American Naturalist 108:355–368.
Nantel P, Gagnon D, Nault A (1996) Population viability analysis of american ginseng and wild leek harvested in stochastic environments. Conservation Biology 10:608–621.
Neubert MG, Caswell H (2000) Demography and dispersal: Calculation and sensitivity analysis of invasion speed for structured populations. Ecology 81:1613–1628.
Nguyen V, Buckley YM, Salguero-Gómez R, Wardle GM (2019) Consequences of neglecting cryptic life stages from demographic models. Ecological Modelling 408:108723.
Nicolè F, Brzosko E, TILL-BOTTRAUD I (2005) Population viability analysis of cypripedium calceolus in a protected area: Longevity, stability and persistence. Journal of Ecology 93:716–726.
Nordbakken J-F, Rydgren K, Økland R (2004) Demography and population dynamics of drosera anglica and d. rotundifolia. Journal of Ecology 92:110–121.
Nordstrom SW, Dykstra AB, Wagenius S (2021) Fires slow population declines of a long-lived prairie plant through multiple vital rates. Oecologia 196:679–691.
Novoa A, Le Roux JJ, Robertson MP, Wilson JR, Richardson DM (2015) Introduced and invasive cactus species: A global review. AoB Plants 7:plu078.
Nunney L, Campbell KA (1993) Assessing minimum viable population size: Demography meets population genetics. Trends in Ecology & Evolution 8:234–239.
Øien D-I, Moen A (2002) Flowering and survival of dactylorhiza lapponica and gymnadenia conopsea in the sølendet nature reserve, central norway. In P Kindlmann, W JH, and D Whigham (eds). Trends and fluctuations and underlying mechanisms in terrestrial orchid populations. Backhuys Publishers, Leiden, The Netherlands, 3–22.
Oli MK, Slade NA, Dobson FS (2001) Effect of density reduction on uinta ground squirrels: Analysis of life table response experiments. Ecology 82:1921–1929.
Omeyer L, Stokes K, Beton D, et al. (2021) Investigating differences in population recovery rates of two sympatrically nesting sea turtle species. Animal Conservation 24:832–846.
Opedal ØH, Falahati-Anbaran M, Albertsen E, et al. (2017) Euglossine bees mediate only limited long-distance gene flow in a tropical vine. New Phytologist 213:1898–1908.
Orive ME (1993) Effective population size in organisms with complex life-histories. Theoretical population biology 44:316–340.
Ospina-Calderón N, Tremblay R, Torres A, Flanagan N (2023) The effect of habitat transformation on a twig epiphytic orchid: Evidence from population dynamics. Frontiers in Ecology and Evolution 11:1135316.
Paniw M, Maag N, Cozzi G, Clutton-Brock T, Ozgul A (2019) Life history responses of meerkats to seasonal changes in extreme environments. Science 363:631–635.
Paniw M, Quintana-Ascencio PF, Ojeda F, Salguero-Gómez R (2017) Accounting for uncertainty in dormant life stages in stochastic demographic models. Oikos 126:900–909.
Pantone D, Baker J, Jordan P (1992) Path analysis of red rice (oryza sativa l.) competition by cultivated rice. Weed Science 40:313–319.
Pardini EA, Drake JM, Chase JM, Knight TM (2009) Complex population dynamics and control of the invasive biennial alliaria petiolata (garlic mustard). Ecological applications 19:387–397.
Parés-Ramos IK, Gould WA, Aide TM (2008) Agricultural abandonment, suburban growth, and forest expansion in puerto rico between 1991 and 2000. Ecology and Society 13.
Pearl R, Miner JR, Parker SL (1927) Experimental studies on the duration of life. XI. Density of population and life duration in drosophila. The American Naturalist 61:289–318.
Pellegrino G, Bellusci F (2014) Effects of human disturbance on reproductive success and population viability of serapias cordigera (orchidaceae). Botanical Journal of the Linnean Society 176:408–420.
Peña-Domene M de la, Martı́nez-Garza C, Howe HF (2013) Early recruitment dynamics in tropical restoration. Ecological applications 23:1124–1134.
Petrolli R, Zinger L, Perez-Lamarque B, et al. (2022) Spatial turnover of fungi and partner choice shape mycorrhizal networks in epiphytic orchids. Journal of Ecology 110:2568–2584.
Pfeifer M, Jetschke G (2006) Influence of geographical isolation on genetic diversity of himantoglossum hircinum (orchidaceae). Folia Geobotanica 41:3–20.
Pfister CA (1998) Patterns of variance in stage-structured populations: Evolutionary predictions and ecological implications. Proceedings of the National Academy of Sciences 95:213–218.
Plard F, Fay R, Kéry M, Cohas A, Schaub M (2019) Integrated population models: Powerful methods to embed individual processes in population dynamics models. Ecology 100:e02715.
Pokorny T, Loose D, Dyker G, Quezada-Euán JJG, Eltz T (2015) Dispersal ability of male orchid bees and direct evidence for long-range flights. Apidologie 46:224–237.
Postma JA, Hecht VL, Hikosaka K, Nord EA, Pons TL, Poorter H (2021) Dividing the pie: A quantitative review on plant density responses. Plant, Cell & Environment 44:1072–1094.
Powers SM, Hampton SE (2019) Open science, reproducibility, and transparency in ecology. Ecological applications 29:e01822.
Ramı́rez Martı́nez A, et al. (2021) Host tree effect on demography and phenology of epiphytic species.
Rasmussen H (1986) The vegetative architecture of orchids.
Rasmussen HN (1995) Terrestrial orchids: From seed to mycotrophic plant. Cambridge University Press.
Rasmussen FN (1999) 12 the development of orchid classification. Genera Orchidacearum: Volume 1: Apostasioideae and Cypripedioideae 1:12.
Rasmussen HN (2011) Methods of studying field germination and seedling physiology: Present potential and drawbacks. European Journal of Environmental Sciences 1.
Rasmussen HN, Dixon KW, Jersáková J, Těšitelová T (2015) Germination and seedling establishment in orchids: A complex of requirements. Annals of Botany 116:391–402.
Rasmussen HN, Whigham DF (1993) Seed ecology of dust seeds in situ: A new study technique and its application in terrestrial orchids. American journal of botany 80:1374–1378.
Raventós J, Garcı́a-González A, Riverón-Giró FB, Damon A (2018) Comparison of transient and asymptotic perturbation analyses of three epiphytic orchid species growing in coffee plantations in mexico: Effect on conservation decisions. Plant Ecology & Diversity 11:133–145.
Raventós J, González E, Mújica E, Bonet A (2015) Transient population dynamics of two epiphytic orchid species after hurricane ivan: Implications for management. Biotropica 47:441–448.
Raventós J, González E, Mújica E, Doak DF (2015) Population viability analysis of the epiphytic ghost orchid (dendrophylax lindenii) in c uba. Biotropica 47:179–189.
Raventós J, Mújica E, Gonzalez E, Bonet A, Ortega-Larrocea MP (2021) The effects of hurricanes on the stochastic population growth of the endemic epiphytic orchid broughtonia cubensis living in cuba. Population Ecology 63:302–312.
Reddoch JM, Reddoch AH (2007) Population ecology of platanthera hookeri (orchidaceae) in southwestern quebec, Canada1. The Journal of the Torrey Botanical Society 134:369–378.
Regehr EV, Hunter CM, Caswell H, Amstrup SC, Stirling I (2010) Survival and breeding of polar bears in the southern beaufort sea in relation to sea ice. Journal of animal ecology 79:117–127.
Reichman OJ, Jones MB, Schildhauer MP (2011) Challenges and opportunities of open data in ecology. Science 331:703–705.
Riecke TV, Williams PJ, Behnke TL, et al. (2019) Integrated population models: Model assumptions and inference. Methods in Ecology and Evolution 10:1072–1082.
Riverón-Giró FB, Raventós J, Damon A, Garcı́a-González A, Mújica E (2019) Spatio-temporal dynamics of the invasive orchid oeceoclades maculata (orchidaceae), in four different habitats in southeast chiapas, mexico. Biological Invasions 21:1905–1919.
Römer G, Dahlgren JP, Salguero-Gómez R, Stott IM, Jones OR (2023) Plant demographic knowledge is biased towards short-term studies of temperate-region herbaceous perennials. Oikos e10250.
Roth G, Caswell H (2016) Hyperstate matrix models: Extending demographic state spaces to higher dimensions. Methods in Ecology and Evolution 7:1438–1450.
Roux PC le, McGeoch MA (2004) The use of size as an estimator of age in the subantarctic cushion plant, azorella selago (apiaceae). Arctic, Antarctic, and Alpine Research 36:509–517.
Saatkamp A, Poschlod P, Venable DL (2014) 11 the functional role of soil seed banks in natural communities.
Sæther B-E, Coulson T, Grøtan V, et al. (2013) How life history influences population dynamics in fluctuating environments. The American Naturalist 182:743–759.
Sagar G (1985) Profile of john l. harper. Studies of plant demography: a festschrift for John L Harper xix–xxv.
Salguero-Gómez R, Jackson J, Gascoigne SJ (2021) Four key challenges in the open-data revolution. Journal of Animal Ecology 90:2000–2004.
Salguero-Gómez R, Jones OR, Archer CR, et al. (2015) The compadre p lant m atrix d atabase: An open online repository for plant demography. Journal of Ecology 103:202–218.
Salguero-Gómez R, Jones OR, Archer CR, et al. (2016) COMADRE: A global data base of animal demography. Journal of Animal Ecology 85:371–384.
Salguero-Gomez R, Jones OR, Jongejans E, et al. (2017) Fast-slow continuum and reproductive strategies structure plant life-history variation worldwide (vol 113, pg 230, 2015). Proceedings of the National Academy of Sciences of the United States of America 114:E9753.
Salguero-Gómez R, Plotkin JB (2010) Matrix dimensions bias demographic inferences: Implications for comparative plant demography. The American Naturalist 176:710–722.
Sampaio MC, Picó FX, Scarano FR (2005) Ramet demography of a nurse bromeliad in brazilian restingas. American Journal of Botany 92:674–681.
Sarukhan J, Gadgil M (1974) Studies on plant demography: Ranunculus repens l., r. bulbosus l. And r. acris l.: III. A mathematical model incorporating multiple modes of reproduction. The Journal of Ecology 921–936.
Schaub M, Kéry M (2021) Integrated population models: Theory and ecological applications with r and JAGS. Academic Press.
Schefferson R (2002) Dormancy and survival in a rare terrestrial orchid. In P Kindlmann, W JH, and D Whigham (eds). Trends and fluctuations and underlying mechanisms in terrestrial orchid populations. Backhuys Publishers, Leiden, The Netherlands, 53–64.
Schmidt IB, Mandle L, Ticktin T, Gaoue OG (2011) What do matrix population models reveal about the sustainability of non-timber forest product harvest? Journal of Applied Ecology 48:815–826.
Schödelbauerová I, Tremblay R, Kindlmann P (2010) Prediction vs. Reality: Can a PVA model predict population persistence 13 years later? Biodiversity and Conservation 19:637–650.
Schoot R van de, Depaoli S, King R, et al. (2021) Bayesian statistics and modelling. Nature Reviews Methods Primers 1:1.
Semmens BX, Semmens DJ, Thogmartin WE, et al. (2016) Quasi-extinction risk and population targets for the eastern, migratory population of monarch butterflies (danaus plexippus). Scientific reports 6:23265.
Shaffer ML (1981) Minimum population sizes for species conservation. BioScience 31:131–134.
Shaffer ML, Samson FB (1985) Population size and extinction: A note on determining critical population sizes. The American Naturalist 125:144–152.
Shao S-C, Jacquemyn H, Selosse M-A (2024) Improved use of mycorrhizal fungi for upscaling of orchid cultivation and population restoration of endangered orchids in china. Symbiosis 1–10.
Shefferson RP, Jacquemyn H, Kull T, Hutchings MJ (2020) The demography of terrestrial orchids: Life history, population dynamics and conservation. Botanical Journal of the Linnean Society 192:315–332.
Shefferson RP, Kull T, Tali K (2005) Adult whole-plant dormancy induced by stress in long-lived orchids. Ecology 86:3099–3104.
Shefferson RP, Kull T, Tali K, Kellett KM (2012) Linking vegetative dormancy to fitness in two long-lived herbaceous perennials. Ecosphere 3:1–19.
Shefferson RP, Mizuta R, Hutchings MJ (2017) Predicting evolution in response to climate change: The example of sprouting probability in three dormancy-prone orchid species. Royal Society Open Science 4:160647.
Shefferson RP, Proper J, Beissinger SR, Simms EL (2003) Life history trade-offs in a rare orchid: The costs of flowering, dormancy, and sprouting. Ecology 84:1199–1206.
Shefferson RP, Sandercock BK, Proper J, Beissinger SR (2001) Estimating dormancy and survival of a rare herbaceous perennial using mark–recapture models. Ecology 82:145–156.
Shefferson RP, Tali K (2007) Dormancy is associated with decreased adult survival in the burnt orchid, neotinea ustulata. Journal of Ecology 95:217–225.
Shefferson RP, Warren RJ, Pulliam HR (2014) Life-history costs make perfect sprouting maladaptive in two herbaceous perennials. Journal of Ecology 102:1318–1328.
Shyu E, Caswell H (2016a) A demographic model for sex ratio evolution and the effects of sex-biased offspring costs. Ecology and Evolution 6:1470–1492.
Shyu E, Caswell H (2016b) Frequency-dependent two-sex models: A new approach to sex ratio evolution with multiple maternal conditions. Ecology and Evolution 6:6855–6879.
Shyu E, Pardini EA, Knight TM, Caswell H (2013) A seasonal, density-dependent model for the management of an invasive weed. Ecological Applications 23:1893–1905.
Sieg CH, King RM (1995) Influence of environmental factors and preliminary demographic analyses of a threatened orchid, platanthera praeclara. American Midland Naturalist 307–323.
Silvertown J, Charlesworth D (2009) Introduction to plant population biology. John Wiley & Sons.
Silvertown J, Franco M, Menges E (1996) Interpretation of elasticity matrices as an aid to the management of plant populations for conservation. Conservation Biology 10:591–597.
Sky H, Nick, Jackson J, et al. (2022) Female reproductive skew exacerbates the extinction risk from poaching in the eastern black rhino. Proceedings of the Royal Society B 289:20220075.
Sletvold N, Dahlgren JP, Øien D-I, Moen A, Ehrlén J (2013) Climate warming alters effects of management on population viability of threatened species: Results from a 30-year experimental study on a rare orchid. Global Change Biology 19:2729–2738.
Sletvold N, Øien D-I, Moen A (2010) Long-term influence of mowing on population dynamics in the rare orchid dactylorhiza lapponica: The importance of recruitment and seed production. Biological Conservation 143:747–755.
Smith ZF (2006) Developping a reintroduction program for the threatened terrestrial orchid diuris fragrantissima. PhD thesis. The University of Melbourne.
Smith M, Caswell H, Mettler-Cherry P (2005) Stochastic flood and precipitation regimes and the population dynamics of a threatened floodplain plant. Ecological Applications 15:1036–1052.
Snyder RE, Ellner SP (2018) Pluck or luck: Does trait variation or chance drive variation in lifetime reproductive success? The American Naturalist 191:E90–E107.
Snyder RE, Ellner SP (2022) Snared in an evil time: How age-dependent environmental and demographic variability contribute to variance in lifetime outcomes. The American Naturalist 200:E124–E140.
Steiner UK, Tuljapurkar S, Roach DA (2021) Quantifying the effect of genetic, environmental and individual demographic stochastic variability for population dynamics in plantago lanceolata. Scientific Reports 11:23174.
Štípková Z (2013) Vliv kosení na populační dynamiku silně ohroženého druhu pseudorchis albida (orchidaceae).; effect of mowing on population dynamics of a highly endangered species pseudorchis albida (orchidaceae). Master’s thesis. Faculty of Science, University of South Bohemia, Czech Republic.
Stott I, Franco M, Carslake D, Townley S, Hodgson D (2010) Boom or bust? A comparative analysis of transient population dynamics in plants. Journal of Ecology 98:302–311.
Stott I, Hodgson DJ, Townley S (2012b) Popdemo: An r package for population demography using projection matrix analysis. Methods in Ecology and Evolution 3:797–802.
Stott I, Hodgson DJ, Townley S (2012a) Beyond sensitivity: Nonlinear perturbation analysis of transient dynamics. Methods in Ecology and Evolution 3:673–684.
Stott I, Hodgson D, Townley S (2021) Popdemo: Demographic modelling using projection matrices.
Stott I, Townley S, Carslake D, Hodgson DJ (2010) On reducibility and ergodicity of population projection matrix models. Methods in Ecology and Evolution 1:242–252.
Stott I, Townley S, Hodgson DJ (2011) A framework for studying transient dynamics of population projection matrix models. Ecology Letters 14:959–970.
Stubben CJ, Milligan BG (2007) Estimating and analyzing demographic models using the popbio package in r. Journal of Statistical Software 22.
Subedi A, Kunwar B, Choi Y, et al. (2013) Collection and trade of wild-harvested orchids in nepal. Journal of Ethnobiology and Ethnomedicine 9:1–10.
Sun W, Yuan X, Liu Z-J, Lan S, Tsai W, Zou S-Q (2019) Multivariate analysis reveals phenotypic diversity of euscaphis japonica population. PloS one 14:e0219046.
Švecová M, Štı́pková Z, Traxmandlová I, Kindlmann P (2023) Difficulties in determining distribution of population sizes within different orchid metapopulations. European Journal of Environmental Sciences 13:96–109.
Tali K (2002) Dynamics or orchis ustulata populations in estonia. In P Kindlmann, W JH, and D Whigham (eds). Trends and fluctuations and underlying mechanisms in terrestrial orchid populations. Backhuys Publishers, Leiden, The Netherlands, 33–42.
Tamm CO (1948) Observations on reproductive and survival of some perrenial herbs. Botanish Notiser 305–321.
Tamm CO (1956) Further observations on the survival and flowering of some perennial herbs, i. Oikos 7:273–292.
Tamm CO (1972) Survival and flowering of some perennial herbs. II. The behaviour of some orchids on permanent plots. Oikos 23–28.
Teitel Z, Klimowski A, Campbell LG (2016) Assessing the effects of hybridization and precipitation on invasive weed demography using strength of selection on vital rates. BMC Evolutionary Biology 16:1–13.
Téllez V, Flores L (2007) Orquı́deas terrestres del pedregal de san Ángel. UNAM México, DF.
Temple SA (1977) Plant-animal mutualism: Coevolution with dodo leads to near extinction of plant. Science 197:885–886.
Tenhumberg B, Louda SM, Eckberg JO, Takahashi M (2008) Monte carlo analysis of parameter uncertainty in matrix models for the weed cirsium vulgare. Journal of Applied Ecology 45:438–447.
Tenhumberg B, Tyre AJ, Rebarber R (2009) Model complexity affects transient population dynamics following a dispersal event: A case study with pea aphids. Ecology 90:1878–1890.
Thorpe A, Stanley A, Kaye T, P L (2011) Population trends, demography, and the effects of environment and disturbance on cypripedium fasciculatum in southern oregon. Institute for Applied Ecology, Corvallis, Oregon; USDI Bureau of Land Management, Medford District, Medford, Oregon.
Ticktin T, Mondragón D, Lopez-Toledo L, Dutra-Elliott D, Aguirre-León E, Hernández-Apolinar M (2020) Synthesis of wild orchid trade and demography provides new insight on conservation strategies. Conservation Letters 13:e12697.
Timsina B, Kindlmann P, Münzbergová Z, Rokaya MB (2021) Six-year demographic study of the terrestrial orchid, crepidium acuminatum: Implications for conservation. Frontiers in Ecology and Evolution 9:676993.
Tomowski M, Lozada-Gobilard S, Jeltsch F, Tiedemann R (2023) Recruitment and migration patterns reveal a key role for seed banks in the meta-population dynamics of an aquatic plant. Scientific Reports 13:11269.
Tonhasca Jr A, Albuquerque GS, Blackmer JL (2003) Dispersal of euglossine bees between fragments of the brazilian atlantic forest. Journal of Tropical Ecology 19:99–102.
Torres AD, Cellini JM, Lencinas MV, et al. (2015) Seed production and recruitment in primary and harvested nothofagus pumilio forests: Influence of regional climate and years after cuttings. Forest Systems 24.
Tremblay RL (1997a) Lepanthes caritensis, an endangered orchid: No sex, no future? Selbyana 160–166.
Tremblay R (1997b) Distribution and dispersion patterns of individuals in nine species of lepanthes (orchidaceae). Biotropica 29:38–45.
Tremblay R (2000) Plant longevity in four species of lepanthes (pleurothallidinae; orchidaceae). LINDLEYANA-WEST PALM BEACH- 15:257–266.
Tremblay RL (2006) The effect of flower position on male and female reproductive success in a deceptively pollinated tropical orchid. Botanical Journal of the Linnean Society 151:405–410.
Tremblay R, Ackerman J (2001) Gene flow and effective population size in lepanthes (orchidaceae): A case for genetic drift. Biological Journal of the Linnean Society 72:47–62.
Tremblay R, Hutchings M (2003) Population dynamics in orchid conservation: A review of analytical methods based on the rare species lepanthes eltoroensis. Orchid conservation Kota Kinabalu: Natural History Publications (Borneo) 183–204.
Tremblay RL, McCarthy MA (2014) Bayesian estimates of transition probabilities in seven small lithophytic orchid populations: Maximizing data availability from many small samples. PLoS One 9:e102859.
Tremblay RL, Meléndez-Ackerman E, Kapan D (2006) Do epiphytic orchids behave as metapopulations? Evidence from colonization, extinction rates and asynchronous population dynamics. Biological Conservation 129:70–81.
Tremblay R, Perez M, Larcombe M, et al. (2009b) Dormancy in caladenia: A bayesian approach to evaluating latency. Australian Journal of Botany 57:340–350.
Tremblay R, Perez M, Larcombe M, et al. (2009a) Population dynamics of caladenia: Bayesian estimates of transition and extinction probabilities. Australian Journal of Botany 57:351–360.
Tremblay R, Raventos J, Ackerman J (2015) When stable-stage equilibrium is unlikely: Integrating transient population dynamics improves asymptotic methods. Annals of Botany 116:381–390.
Tremblay RL, Tyre AJ, Pérez M-E, Ackerman JD (2021) Population projections from holey matrices: Using prior information to estimate rare transition events. Ecological Modelling 447:109526.
Tuljapurkar S (1989) An uncertain life: Demography in random environments. Theoretical population biology 35:227–294.
Tuljapurkar S (2013) Population dynamics in variable environments. Springer Science & Business Media.
Tyre A, RL T, Perez M (2024) Raretrans: Bayesian priors for matrix population models.
Vallejo-Marı́n M, Dorken ME, Barrett SC (2010) The ecological and evolutionary consequences of clonality for plant mating. Annual Review of Ecology, Evolution, and Systematics 41:193–213.
Vanderklein D, Martinez-Vilalta J, Lee S, Mencuccini M (2007) Plant size, not age, regulates growth and gas exchange in grafted scots pine trees. Tree physiology 27:71–79.
Vanhecke L (1991) Population dynamics of dactylorhiza praetermissa in relation to topography and inundation. Population Ecology of Terrestrial Orchids SPB Academic Publishing, The Hague 15–32.
Veran S, Beissinger SR (2009) Demographic origins of skewed operational and adult sex ratios: Perturbation analyses of two-sex models. Ecology Letters 12:129–143.
Vries C de, Caswell H (2019) Selection in two-sex stage-structured populations: Genetics, demography, and polymorphism. Theoretical population biology 130:160–169.
Waite S, Hutchings M (1991) The effects of different management regimes on the population dynamics of ophrys sphegodes: Analysis and description using matrix models. Population ecology of terrestrial orchids SPB Acad Publ bv, The Hague 161–175.
Weiner J, Stoll P, Muller-Landau H, Jasentuliyana A (2001) The effects of density, spatial pattern, and competitive symmetry on size variation in simulated plant populations. The American Naturalist 158:438–450.
Weiner J, Thomas SC (1986) Size variability and competition in plant monocultures. Oikos 211–222.
Wells T (1991) Demographic and biological studies on ophrys apifera: Some results from a 10 year study. Population ecology of terrestrial orchids.
Wells T, Rothery P, COX R, Bamford S (1998) Flowering dynamics of orchis morio l. And herminium monorchis (l.) r. Br. At two sites in eastern england. Botanical Journal of the Linnean Society 126:39–48.
Wells TC, Willems JH (1991) Population ecology of terrestrial orchids. International orchid symposium (1990: South limburg, netherlands). SPB Academic Publishing.
Werner PA, Caswell H (1977) Population growth rates and age versus stage-distribution models for teasel (dipsacus sylvestris huds.). Ecology 58:1103–1111.
Werner PA, Peacock SJ (2019) Savanna canopy trees under fire: Long-term persistence and transient dynamics from a stage-based matrix population model. Ecosphere 10:e02706.
Whigham DF, O’Neill JP, Rasmussen HN, Caldwell BA, McCormick MK (2006) Seed longevity in terrestrial orchids–potential for persistent in situ seed banks. Biological conservation 129:24–30.
Willems J, Bik L (1991) Population biology of orchis simia in the netherlands, 1972–1990. In TCE Wells and JH Willems (eds). Population ecology of terrestrial orchids. SPB Academic Publishing bv, The Hague, 33–45.
Williams JL, Ellis MM, Bricker MC, Brodie JF, Parsons EW (2011) Distance to stable stage distribution in plant populations and implications for near-term population projections. Journal of ecology 99:1171–1178.
Winkler M, Hülber K, Hietz P (2009) Population dynamics of epiphytic orchids in a metapopulation context. Annals of Botany 104:995–1004.
Wonka C (2010) Large herbivores impact on demographic characteristics and population dynamics of an endangered orchid spiranthes parksii correll. Master’s thesis. Texas A & M University.
Young K, Ewel J, Brown B (1987) Seed dynamics during forest succession in costa rica. Vegetatio 71:157–173.
Zettler LW, McInnis J TM (1993) Symbiotic seed germination and development of spiranthes cernua and goodyera pubescens (orchidaceae: spiranthoideae).
Zhongjian L, Lijun C, Wenhui R, Liqiang L, Yuting Z (2008) Correlation between numerical dynamics and reproductive behavior in cypripedium lentiginosum. Acta Ecologica Sinica 28:111–121.
Zotz G, Schmidt G (2006) Population decline in the epiphytic orchid aspasia principissa. Biological Conservation 129:82–90.