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Journal articles on the topic 'Phylogenetic structure'

Author: Grafiati

Published: 4 June 2021

Last updated: 26 July 2025

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1

Villalobos, Fabricio, Thiago F. Rangel, and José Alexandre F. Diniz-Filho. "Phylogenetic fields of species: cross-species patterns of phylogenetic structure and geographical coexistence." Proceedings of the Royal Society B: Biological Sciences 280, no. 1756 (2013): 20122570. https://doi.org/10.5281/zenodo.14817416.

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(Uploaded by Plazi for the Bat Literature Project) Differential coexistence among species underlies geographical patterns of biodiversity. Understanding such patterns has relied either on ecological or historical approaches applied separately. Recently, macroecology and community phylogenetics have tried to integrate both ecological and historical approaches. However, macroecology is mostly non-phylogenetic, whereas community phylogenetics is largely focused on local scales. Here, we propose a conceptual framework to link macroecology and community phylogenetics by exploring the evolutionary c

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2

Kalersjo, Mari, Victor A. Albert, and James S. Farris. "Homoplasy Increases Phylogenetic Structure." Cladistics 15, no. 1 (1999): 91–93. http://dx.doi.org/10.1111/j.1096-0031.1999.tb00400.x.

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3

Hai, Nguyen Hong, Yousef Erfanifard, Tran Quang Bao, Any Mary Petritan, Trinh Hien Mai, and Ion Catalin Petritan. "Phylogenetic Community and Nearest Neighbor Structure of Disturbed Tropical Rain Forests Encroached by Streblus macrophyllus." Forests 11, no. 7 (2020): 722. http://dx.doi.org/10.3390/f11070722.

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Although woody plant encroachment of tropical forest ecosystems has been related to altered disturbance regimes, its impacts on the nearest neighborhood structures and community phylogenetics are still poorly understood. Streblus macrophyllus is a light-demanding species during its early life stages and is shade-tolerant as a mature tree. S. macrophyllus can be found in tropical karst evergreen forests in northern Vietnam. It often regenerates at high densities in anthropogenic disturbed forest stands. To understand the structural patterns of disturbed forests encroached by S. macrophyllus at

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4

Morán-Titla, Christian D., Juan-Hector García-Chávez, Leonel Lopez-Toledo, and Clementina González. "Niche-related processes explain phylogenetic structure of acoustic bird communities in Mexico." PeerJ 13 (January 8, 2025): e18412. https://doi.org/10.7717/peerj.18412.

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Acoustic communities are acoustically active species aggregations within a habitat, where vocal interactions between species can interfere their communication. The acoustic adaptation hypothesis (AAH) explains how the habitat favors the transmission of acoustic signals. To understand how bird acoustic communities are structured, we tested the effect of habitat structure on the phylogenetic structure, and on the phylogenetic and vocal diversity of acoustic communities in a semi-arid zone of Mexico. From autonomous recordings in three types of vegetation (crop fields, tetecheras, and mesquiteras

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5

Padullés Cubino, Josep, Zdeňka Lososová, Gianmaria Bonari, et al. "Phylogenetic structure of European forest vegetation." Journal of Biogeography 48, no. 4 (2021): 903–16. http://dx.doi.org/10.1111/jbi.14046.

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6

Graham, C. H., J. L. Parra, C. Rahbek, and J. A. McGuire. "Phylogenetic structure in tropical hummingbird communities." Proceedings of the National Academy of Sciences 106, Supplement_2 (2009): 19673–78. http://dx.doi.org/10.1073/pnas.0901649106.

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7

Rainey, Fred A., Elke Lang, and Erko Stackebrandt. "The phylogenetic structure of the genusAcinetobacter." FEMS Microbiology Letters 124, no. 3 (1994): 349–53. http://dx.doi.org/10.1111/j.1574-6968.1994.tb07307.x.

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8

Liu, Shu-Lin, Anthony B. Schryvers, Kenneth E. Sanderson, and Randal N. Johnston. "Bacterial Phylogenetic Clusters Revealed by Genome Structure." Journal of Bacteriology 181, no. 21 (1999): 6747–55. http://dx.doi.org/10.1128/jb.181.21.6747-6755.1999.

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ABSTRACT Current bacterial taxonomy is mostly based on phenotypic criteria, which may yield misleading interpretations in classification and identification. As a result, bacteria not closely related may be grouped together as a genus or species. For pathogenic bacteria, incorrect classification or misidentification could be disastrous. There is therefore an urgent need for appropriate methodologies to classify bacteria according to phylogeny and corresponding new approaches that permit their rapid and accurate identification. For this purpose, we have devised a strategy enabling us to resolve

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9

Cardillo, Marcel. "Phylogenetic structure of mammal assemblages at large geographical scales: linking phylogenetic community ecology with macroecology." Philosophical Transactions of the Royal Society B: Biological Sciences 366, no. 1577 (2011): 2545–53. http://dx.doi.org/10.1098/rstb.2011.0021.

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Phylogenetic community ecology seeks to explain the processes involved in the formation of species assemblages by analysing their phylogenetic structure, and to date has focused primarily on local-scale communities. Macroecology, on the other hand, is concerned with the structure of assemblages at large geographical scales, but has remained largely non-phylogenetic. Analysing the phylogenetic structure of large-scale assemblages provides a link between these two research programmes. In this paper, I ask whether we should expect large-scale assemblages to show significant phylogenetic structure

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Pons, Joan Carles, Tomás M. Coronado, Michael Hendriksen, and Andrew Francis. "A polynomial invariant for a new class of phylogenetic networks." PLOS ONE 17, no. 5 (2022): e0268181. http://dx.doi.org/10.1371/journal.pone.0268181.

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Invariants for complicated objects such as those arising in phylogenetics, whether they are invariants as matrices, polynomials, or other mathematical structures, are important tools for distinguishing and working with such objects. In this paper, we generalize a complete polynomial invariant on trees to a class of phylogenetic networks called separable networks, which will include orchard networks. Networks are becoming increasingly important for their ability to represent reticulation events, such as hybridization, in evolutionary history. We provide a function from the space of internally m

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11

Craig, Jack M., Tiago P. Carvalho, Prosanta Chakrabarty, et al. "Using community phylogenetics to assess phylogenetic structure in the Fitzcarrald region of Western Amazonia." Neotropical Ichthyology 18, no. 2 (2020): 1–16. https://doi.org/10.1590/1982-0224-2020-0004.

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Craig, Jack M., Carvalho, Tiago P., Chakrabarty, Prosanta, Derouen, Valerie, Ortega, Hernán, Petry, Paulo, Reis, Roberto E., Tagliacollo, Victor A., Albert, James S. (2020): Using community phylogenetics to assess phylogenetic structure in the Fitzcarrald region of Western Amazonia. Neotropical Ichthyology (e200004) 18 (2): 1-16, DOI: 10.1590/1982-0224-2020-0004, URL: http://dx.doi.org/10.1590/1982-0224-2020-0004

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12

Zhang, Wei, Wen Tian, Zhipeng Gao, Guoli Wang, and Hong Zhao. "Phylogenetic Utility of rRNA ITS2 Sequence-Structure under Functional Constraint." International Journal of Molecular Sciences 21, no. 17 (2020): 6395. http://dx.doi.org/10.3390/ijms21176395.

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The crucial function of the internal transcribed spacer 2 (ITS2) region in ribosome biogenesis depends on its secondary and tertiary structures. Despite rapidly evolving, ITS2 is under evolutionary constraints to maintain the specific secondary structures that provide functionality. A link between function, structure and evolution could contribute an understanding to each other and recently has created a growing point of sequence-structure phylogeny of ITS2. Here we briefly review the current knowledge of ITS2 processing in ribosome biogenesis, focusing on the conservative characteristics of I

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13

Cisneros, Laura M., Matthew E. Fagan, and Michael R. Willig. "Environmental and spatial drivers of taxonomic, functional, and phylogenetic characteristics of bat communities in human-modified landscapes." PeerJ 4 (October 13, 2016): e2551. http://dx.doi.org/10.7717/peerj.2551.

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BackgroundAssembly of species into communities following human disturbance (e.g., deforestation, fragmentation) may be governed by spatial (e.g., dispersal) or environmental (e.g., niche partitioning) mechanisms. Variation partitioning has been used to broadly disentangle spatial and environmental mechanisms, and approaches utilizing functional and phylogenetic characteristics of communities have been implemented to determine the relative importance of particular environmental (or niche-based) mechanisms. Nonetheless, few studies have integrated these quantitative approaches to comprehensively

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14

Letcher, Susan G. "Phylogenetic structure of angiosperm communities during tropical forest succession." Proceedings of the Royal Society B: Biological Sciences 277, no. 1678 (2009): 97–104. http://dx.doi.org/10.1098/rspb.2009.0865.

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The phylogenetic structure of ecological communities can shed light on assembly processes, but the focus of phylogenetic structure research thus far has been on mature ecosystems. Here, I present the first investigation of phylogenetic community structure during succession. In a replicated chronosequence of 30 sites in northeastern Costa Rica, I found strong phylogenetic overdispersion at multiple scales: species present at local sites were a non-random assemblage, more distantly related than chance would predict. Phylogenetic overdispersion was evident when comparing the species present at ea

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15

Ibalim, Sentiko, Pagi S. Toko, Simon T. Segar, et al. "Phylogenetic structure of moth communities (Geometridae, Lepidoptera) along a complete rainforest elevational gradient in Papua New Guinea." PLOS ONE 19, no. 8 (2024): e0308698. http://dx.doi.org/10.1371/journal.pone.0308698.

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We use community phylogenetics to elucidate the community assembly mechanisms for Geometridae moths (Lepidoptera) collected along a complete rainforest elevational gradient (200–3700 m a.s.l) on Mount Wilhelm in Papua New Guinea. A constrained phylogeny based on COI barcodes for 604 species was used to analyse 1390 species x elevation occurrences at eight elevational sites separated by 500 m elevation increments. We obtained Nearest Relatedness Index (NRI), Nearest Taxon Index (NTI) and Standardised Effect Size of Faith’s Phylogenetic Diversity (SES.PD) and regressed these on temperature, plan

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16

Strecker, Angela L., and Julian D. Olden. "Fish species introductions provide novel insights into the patterns and drivers of phylogenetic structure in freshwaters." Proceedings of the Royal Society B: Biological Sciences 281, no. 1778 (2014): 20133003. http://dx.doi.org/10.1098/rspb.2013.3003.

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Despite long-standing interest of terrestrial ecologists, freshwater ecosystems are a fertile, yet unappreciated, testing ground for applying community phylogenetics to uncover mechanisms of species assembly. We quantify phylogenetic clustering and overdispersion of native and non-native fishes of a large river basin in the American Southwest to test for the mechanisms (environmental filtering versus competitive exclusion) and spatial scales influencing community structure. Contrary to expectations, non-native species were phylogenetically clustered and related to natural environmental conditi

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17

Smith, M. Alex. "Ants, elevation, phylogenetic diversity and community structure." Ecosphere 6, no. 11 (2015): art221. http://dx.doi.org/10.1890/es14-00473.1.

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18

Leventhal, Gabriel E., Roger Kouyos, Tanja Stadler, et al. "Inferring Epidemic Contact Structure from Phylogenetic Trees." PLoS Computational Biology 8, no. 3 (2012): e1002413. http://dx.doi.org/10.1371/journal.pcbi.1002413.

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19

Helmus, Matthew R., Kristina Savage, Matthew W. Diebel, Jeffrey T. Maxted, and Anthony R. Ives. "Separating the determinants of phylogenetic community structure." Ecology Letters 10, no. 10 (2007): 917–25. http://dx.doi.org/10.1111/j.1461-0248.2007.01083.x.

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20

Ward-Rainey, Naomi, Fred A. Rainey, and Erko Stackebrandt. "The Phylogenetic Structure of the Genus Streptosporangium." Systematic and Applied Microbiology 19, no. 1 (1996): 50–55. http://dx.doi.org/10.1016/s0723-2020(96)80008-7.

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21

Hansberg, Wilhelm, Rodolfo Salas-Lizana, and Laura Domínguez. "Fungal catalases: Function, phylogenetic origin and structure." Archives of Biochemistry and Biophysics 525, no. 2 (2012): 170–80. http://dx.doi.org/10.1016/j.abb.2012.05.014.

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22

KRASNOV, BORIS R., SHAI PILOSOF, GEORGY I. SHENBROT, IRINA S. KHOKHLOVA, and A. ALLAN DEGEN. "Phylogenetic structure of host spectra in Palaearctic fleas: stability versus spatial variation in widespread, generalist species." Parasitology 141, no. 2 (2013): 181–91. http://dx.doi.org/10.1017/s0031182013001376.

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SUMMARYWe investigated spatial variation in the phylogenetic structure of host spectra in fleas parasitic on small mammals. Measures of phylogenetic host specificity ((phylogenetic species clustering (PSC) and phylogenetic species variability (PSV)) varied significantly more between than within flea species, but the proportion of variation which accounted for among-species differences was low. In 13 of 18 common flea species, at least one of the indices of the phylogenetic structure of regional host spectra revealed a significantly positive association with the phylogenetic structure of region

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23

Villalobos, Fabricio, Thiago F. Rangel, and José Alexandre F. Diniz-Filho. "Phylogenetic fields of species: cross-species patterns of phylogenetic structure and geographical coexistence." Proceedings of the Royal Society B: Biological Sciences 280, no. 1756 (2013): 20122570. http://dx.doi.org/10.1098/rspb.2012.2570.

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24

HARDY, OLIVIER J., and BRUNO SENTERRE. "Characterizing the phylogenetic structure of communities by an additive partitioning of phylogenetic diversity." Journal of Ecology 95, no. 3 (2007): 493–506. http://dx.doi.org/10.1111/j.1365-2745.2007.01222.x.

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25

Frishkoff, Luke O., Perry de Valpine, and Leithen K. M'Gonigle. "Phylogenetic occupancy models integrate imperfect detection and phylogenetic signal to analyze community structure." Ecology 98, no. 1 (2017): 198–210. http://dx.doi.org/10.1002/ecy.1631.

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26

Soares, Bruno Eleres, and Gabriel Nakamura. "ECOLOGIA FILOGENÉTICA DE COMUNIDADES DE PEIXES DE RIACHO NEOTROPICAIS." Oecologia Australis 25, no. 02 (2021): 433–48. http://dx.doi.org/10.4257/oeco.2021.2502.13.

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Neotropical stream fishes exhibit a complex evolutionary history and encompass both old and recent lineages. Patterns of species diversity of stream fishes are relatively well-studied for Neotropical streams, but not for patterns of clade distribution and historical factors that structure these assemblages, which are the main interests of phylogenetic ecology. Understanding the evolutionary context of communities provides important insights into large-scale mechanisms that structure them. This review aims to: (i) discuss the main concepts of phylogenetic ecology and its application to Neotropi

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27

Cao, Jiling, Yuxiong Zheng, and Yusheng Yang. "Phylogenetic Structure of Soil Bacterial Communities along Age Sequence of Subtropical Cunninghamia Lanceolata Plantations." Sustainability 12, no. 5 (2020): 1864. http://dx.doi.org/10.3390/su12051864.

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Despite increasing investigations having studied the changing patterns of soil microbial communities along forest plantation development age sequences, the underlying phylogenetic assemblages are seldom studied for microbial community. Here, the soil bacterial taxonomic and phylogenetic diversity as well as the phylogenetic structure were examined to elucidate the community diversity and assembly in three typical ages (young, middle and mature) of Cunninghamia lanceolata plantations, a dominant economic tree species in southern China. Results indicated that the soil bacterial phylogenetic not

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28

Adamo, Irene, Carles Castaño, José Antonio Bonet, Carlos Colinas, Juan Martínez de Aragón, and Josu G. Alday. "Lack of Phylogenetic Differences in Ectomycorrhizal Fungi among Distinct Mediterranean Pine Forest Habitats." Journal of Fungi 7, no. 10 (2021): 793. http://dx.doi.org/10.3390/jof7100793.

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Understanding whether the occurrences of ectomycorrhizal species in a given tree host are phylogenetically determined can help in assessing different conservational needs for each fungal species. In this study, we characterized ectomycorrhizal phylogenetic composition and phylogenetic structure in 42 plots with five different Mediterranean pine forests: i.e., pure forests dominated by P. nigra, P. halepensis, and P. sylvestris, and mixed forests of P. nigra-P. halepensis and P. nigra-P. sylvestris, and tested whether the phylogenetic structure of ectomycorrhizal communities differs among these

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29

Li, Jun, Deng-Feng Xie, Xian-Lin Guo, Zhen-Ying Zheng, Xing-Jin He, and Song-Dong Zhou. "Comparative Analysis of the Complete Plastid Genome of Five Bupleurum Species and New Insights into DNA Barcoding and Phylogenetic Relationship." Plants 9, no. 4 (2020): 543. http://dx.doi.org/10.3390/plants9040543.

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Bupleurum L. (Apiaceae) is a perennial and herbal genus, most species of which have high medicinal value. However, few studies have been performed using plastome data in this genus, and the phylogenetic relationships have always been controversial. In this study, the plastid genomes of Bupleurum chinense and Bupleurum commelynoideum were sequenced, and their gene content, order, and structure were counted and analyzed. The only three published Bupleurum species (B. boissieuanum, B. falcatum, and B. latissimum) and other fifteen allied species were selected to conduct a series of comparative an

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30

Prasad, Vibhu Ranjan, and Karin Isler. "Assessment of phylogenetic structure in genome size – gene content correlations." Genome 55, no. 5 (2012): 391–95. http://dx.doi.org/10.1139/g2012-019.

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Gene content and gene-coding percentage can be predicted from genome size in newly sequenced organisms. Here, we investigate whether these predictions are influenced by phylogenetic relationships between the involved species. Combining a highly resolved phylogenetic tree with a large compilation of gene content data, our results reveal the presence of significant phylogenetic structure in the correlations between genome size and gene content in both bacteria and eukaryotes. The variation in log(gene content) explained by log(genome size) in combination with phylogeny was found to be 97% in bac

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31

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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32

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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33

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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34

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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35

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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36

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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37

Webb, Campbell O., David D. Ackerly, Mark A. McPeek, and Michael J. Donoghue. "Phylogenies and Community Ecology." Annual Review of Ecology and Systematics 33, no. 1 (2002): 475–505. https://doi.org/10.5281/zenodo.13409456.

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(Uploaded by Plazi for the Bat Literature Project) ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize

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Zhang, Xixi, Zhihuang Zhu, Jianxin Wang, Ge Shi, and Qi Lin. "Mitogenomic and Phylogenetic Analyses of Lysmata lipkei (Crustacea: Decapoda: Lysmatidae)." Fishes 10, no. 4 (2025): 177. https://doi.org/10.3390/fishes10040177.

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This study aims to elucidate the characteristics of the mitogenome of Lysmata lipkei and investigate its phylogenetic relationships. Using both the Illumina NovaSeq 6000 (Illumina, Inc., San Diego, CA, USA) and PacBio Sequel II (Pacific Biosciences of California, Inc., Menlo Park, CA, USA) platforms, the complete mitogenome sequence of L. lipkei was determined. The mitogenome of L. lipkei was annotated, measuring 17,497 bp in length and comprising 13 protein-coding genes (PCGs), 2 ribosomal RNA genes (rRNAs), and 22 transfer RNA genes (tRNAs). The nucleotide composition of the genome exhibited

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39

Pugliesi, Lara, and Alessandro Rapini. "Tropical Refuges with Exceptionally High Phylogenetic Diversity Reveal Contrasting Phylogenetic Structures." International Journal of Biodiversity 2015 (February 15, 2015): 1–17. http://dx.doi.org/10.1155/2015/758019.

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Loss of phylogenetic diversity (PD) has gained increasing attention in conservation biology. However, PD is not equally distributed in a phylogeny and can be better assessed when species relatedness (phylogenetic structure: PS) is also considered. Here, we investigate PD and PS in two refuges of biodiversity in northeastern Brazil: the Bahia Costal Forest (BCF) in the Atlantic Forest domain and Chapada Diamantina (CD) in the Caatinga domain. We used geographic data of 205 species at two spatial scales and a chronogram of Apocynaceae based on matK sequences to estimate PD and PS. Our results sh

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40

Grandcolas, Philippe. "Phylogenetic Analysis and the Study of Community Structure." Oikos 82, no. 2 (1998): 397. http://dx.doi.org/10.2307/3546983.

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41

Moses, Marissa, and Pathmanathan Umaharan. "Genetic Structure and Phylogenetic Relationships of Capsicum chinense." Journal of the American Society for Horticultural Science 137, no. 4 (2012): 250–62. http://dx.doi.org/10.21273/jashs.137.4.250.

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Capsicum chinense is commercially the most important pepper species grown in the Caribbean. It is popularly used to impart pungency and flavor to Caribbean cuisine. However, unlike Capsicum annuum, which is the most commercially exploited domesticated species internationally, C. chinense has not been methodically collected or characterized for systematic improvement through plant breeding. The objectives of the study were to assess the diversity of C. chinense and its structure within the Caribbean basin and to determine its phylogenetic relationship to groups within South America. DNA isolate

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42

Passarelli-Araujo, Hemanoel, Sarah H. Jacobs, Glória R. Franco, and Thiago M. Venancio. "Phylogenetic analysis and population structure of Pseudomonas alloputida." Genomics 113, no. 6 (2021): 3762–73. http://dx.doi.org/10.1016/j.ygeno.2021.09.008.

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43

Mache, Regis, A. Cottet, A. Imberty, AM Hakimi, and S. Lerbs-Mache. "The Plant Sigma Factors: Structure and Phylogenetic Origin." Genome Letters 1, no. 2 (2002): 71–76. http://dx.doi.org/10.1166/gl.2002.007.

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44

Cattin, Marie-France, Louis-Félix Bersier, Carolin Banašek-Richter, Richard Baltensperger, and Jean-Pierre Gabriel. "Phylogenetic constraints and adaptation explain food-web structure." Nature 427, no. 6977 (2004): 835–39. http://dx.doi.org/10.1038/nature02327.

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45

Pillar, Valério D., and Leandro d. S. Duarte. "A framework for metacommunity analysis of phylogenetic structure." Ecology Letters 13, no. 5 (2010): 587–96. http://dx.doi.org/10.1111/j.1461-0248.2010.01456.x.

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46

Zhu, Juntao, Yangjian Zhang, Xian Yang, et al. "Warming alters plant phylogenetic and functional community structure." Journal of Ecology 108, no. 6 (2020): 2406–15. http://dx.doi.org/10.1111/1365-2745.13448.

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Lachance, M. A., J. E. Kaden, H. J. Phaff, and W. T. Starmer. "Phylogenetic structure of the Sporopachydermia cereana species complex." International Journal of Systematic and Evolutionary Microbiology 51, no. 1 (2001): 237–47. http://dx.doi.org/10.1099/00207713-51-1-237.

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Lakshmi, Balasubramanian, Madhulika Mishra, Narayanaswamy Srinivasan, and Govindaraju Archunan. "Structure-Based Phylogenetic Analysis of the Lipocalin Superfamily." PLOS ONE 10, no. 8 (2015): e0135507. http://dx.doi.org/10.1371/journal.pone.0135507.

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Gusfield, Dan, Satish Eddhu, and Charles Langley. "The Fine Structure of Galls in Phylogenetic Networks." INFORMS Journal on Computing 16, no. 4 (2004): 459–69. http://dx.doi.org/10.1287/ijoc.1040.0099.

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Si, Xingfeng, Marc W. Cadotte, Di Zeng, et al. "Functional and phylogenetic structure of island bird communities." Journal of Animal Ecology 86, no. 3 (2017): 532–42. http://dx.doi.org/10.1111/1365-2656.12650.

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