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Article ; Online: Will molecular phylogenetics help decrease nomenclatural instability?

Lesica, Peter / Lavin, Matt

2023 Volume 110, Issue 8, Page(s) e16219

Language	English
Publishing date	2023-08-25
Publishing country	United States
Document type	Journal Article
ZDB-ID	2935-x
ISSN	1537-2197 ; 0002-9122
ISSN (online)	1537-2197
ISSN	0002-9122
DOI	10.1002/ajb2.16219
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Article: Systematics of Vigna Subgenus Lasiospron (Leguminosae: Papilionoideae: Phaseolinae)

Delgado-Salinas, Alfonso / Lavin, Matt / Snak, Cristiane / Lewis, Gwilym P.

Systematic botany. 2022 Mar. 21, v. 47, no. 1

2022

Abstract: A taxonomic treatment is herein provided for the six primarily Neotropical species of Vigna subg. Lasiospron. This subgenus is distinguished, in part, by its close relationship with Old World Vigna species, but rather than having an Old World Vigna ... ...

Abstract	A taxonomic treatment is herein provided for the six primarily Neotropical species of Vigna subg. Lasiospron. This subgenus is distinguished, in part, by its close relationship with Old World Vigna species, but rather than having an Old World Vigna floral asymmetry where distal floral parts can have a right-hand curvature (from a face-view perspective), distal parts of Vigna subg. Lasiospron flowers, like those of American Phaseolinae, curve to the left. Our proposed taxonomy reflects published phylogenetic analyses that resolve the Vigna subg. Lasiospron species in a subclade of the primarily Old World clade of species of Vigna sensu stricto. Vigna subg. Lasiospron is therefore distinctive in having a primarily neotropical distribution. Three of the six Vigna subg. Lasiospron species have an amphi-Atlantic distribution, which we suggest was achieved naturally by the ability of these species to disperse and colonize coastal habitats. Nomenclatural and taxonomic synonyms are reported, along with species descriptions and the biogeographical, genetic, and morphological evidence that argues for each of the six Vigna subg. Lasiospron species fitting a unified species concept.
Keywords	Neotropics ; Vigna ; asymmetry ; geographical distribution ; phylogeny
Language	English
Dates of publication	2022-0321
Size	p. 97-124.
Publishing place	American Society of Plant Toxonomists
Document type	Article
ZDB-ID	2052625-8
ISSN	1548-2324 ; 0363-6445
ISSN (online)	1548-2324
ISSN	0363-6445
DOI	10.1600/036364422X16442668423428
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Article ; Online: Dispersal, isolation and diversification with continued gene flow in an Andean tropical dry forest.

Toby Pennington, R / Lavin, Matt

Molecular ecology

2017 Volume 26, Issue 13, Page(s) 3327–3329

Abstract: The Andes are the world's longest mountain chain, and the tropical Andes are the world's richest biodiversity hot spot. The origin of the tropical Andean cordillera is relatively recent because the elevation of the mountains was relatively low (400-2500 ... ...

Abstract	The Andes are the world's longest mountain chain, and the tropical Andes are the world's richest biodiversity hot spot. The origin of the tropical Andean cordillera is relatively recent because the elevation of the mountains was relatively low (400-2500 m palaeoelevations) only 10 MYA with final uplift being rapid. These final phases of the Andean orogeny are thought to have had a fundamental role in shaping processes of biotic diversification and biogeography, with these effects reaching far from the mountains themselves by changing the course of rivers and deposition of mineral-rich Andean sediments across the massive Amazon basin. In a recent issue of Molecular Ecology, Oswald, Overcast, Mauck, Andersen, and Smith (2017) investigate the biogeography and diversification of bird species in the Andes of Peru and Ecuador. Their study is novel in its focus on tropical dry forests (Figure 1) rather than more mesic biomes such as rain forests, cloud forests and paramos, which tend to be the focus of science and conservation in the Andean hot spot. It is also able to draw powerful conclusions via the first deployment of genomic approaches to a biogeographic question in the threatened dry forests of the New World.
MeSH term(s)	Animals ; Biodiversity ; Birds ; Ecuador ; Forests ; Gene Flow ; Peru ; Phylogeny
Language	English
Publishing date	2017-03-02
Publishing country	England
Document type	News ; Comment
ZDB-ID	1126687-9
ISSN	1365-294X ; 0962-1083
ISSN (online)	1365-294X
ISSN	0962-1083
DOI	10.1111/mec.14182
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Article ; Online: The contrasting nature of woody plant species in different neotropical forest biomes reflects differences in ecological stability.

Pennington, R Toby / Lavin, Matt

The New phytologist

2015 Volume 210, Issue 1, Page(s) 25–37

Abstract: A fundamental premise of this review is that distinctive phylogenetic and biogeographic patterns in clades endemic to different major biomes illuminate the evolutionary process. In seasonally dry tropical forests (SDTFs), phylogenies are geographically ... ...

Abstract	A fundamental premise of this review is that distinctive phylogenetic and biogeographic patterns in clades endemic to different major biomes illuminate the evolutionary process. In seasonally dry tropical forests (SDTFs), phylogenies are geographically structured and multiple individuals representing single species coalesce. This pattern of monophyletic species, coupled with their old species stem ages, is indicative of maintenance of small effective population sizes over evolutionary timescales, which suggests that SDTF is difficult to immigrate into because of persistent resident lineages adapted to a stable, seasonally dry ecology. By contrast, lack of coalescence in conspecific accessions of abundant and often widespread species is more frequent in rain forests and is likely to reflect large effective population sizes maintained over huge areas by effective seed and pollen flow. Species nonmonophyly, young species stem ages and lack of geographical structure in rain forest phylogenies may reflect more widespread disturbance by drought and landscape evolution causing resident mortality that opens up greater opportunities for immigration and speciation. We recommend full species sampling and inclusion of multiple accessions representing individual species in phylogenies to highlight nonmonophyletic species, which we predict will be frequent in rain forest and savanna, and which represent excellent case studies of incipient speciation.
MeSH term(s)	Ecosystem ; Forests ; Seasons ; Species Specificity ; Tropical Climate ; Wood/physiology
Language	English
Publishing date	2015-11-11
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	208885-x
ISSN	1469-8137 ; 0028-646X
ISSN (online)	1469-8137
ISSN	0028-646X
DOI	10.1111/nph.13724
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Article: Biomes as evolutionary arenas: Convergence and conservatism in the trans‐continental succulent biome

Ringelberg, Jens J / Zimmermann, Niklaus E / Weeks, Andrea / Lavin, Matt / Hughes, Colin E

Global ecology and biogeography. 2020 July, v. 29, no. 7

2020

Abstract: AIM: Historically, biomes have been defined based on their structurally and functionally similar vegetation, but there is debate about whether these similarities are superficial, and about how biomes are defined and mapped. We propose that combined ... ...

Abstract	AIM: Historically, biomes have been defined based on their structurally and functionally similar vegetation, but there is debate about whether these similarities are superficial, and about how biomes are defined and mapped. We propose that combined assessment of evolutionary convergence of plant functional traits and phylogenetic biome conservatism provides a useful approach for characterizing biomes. We focus on the little‐known succulent biome, a trans‐continentally distributed assemblage of succulent‐rich, drought‐deciduous, fire‐free forest, thicket and scrub vegetation as a useful exemplar biome to gain insights into these questions. LOCATION: Global lowland (sub)tropics. TIME PERIOD: Present. MAJOR TAXA STUDIED: Angiosperms. METHODS: We use a model ensemble approach to model the distribution of 884 species of stem succulents, a plant functional group representing a striking example of evolutionary convergence. Using this model, phylogenies, and species occurrence data, we quantify phylogenetic succulent biome conservatism for 10 non‐succulent trans‐continental plant clades including prominent elements of the succulent biome, representing over 800 species. RESULTS: The geographical and climatic distributions of stem succulents provide an objective and quantitative proxy for mapping the distribution of the succulent biome. High fractions of succulent biome occupancy across continents suggest all 10 non‐succulent study clades are phylogenetically conserved within the succulent biome. MAIN CONCLUSIONS: The trans‐continental succulent and savanna biomes both show evolutionary convergence in key biome‐related plant functional traits. However, in contrast to the savanna biome, which was apparently assembled via repeated local recruitment of lineages via biome shifts from adjacent biomes within continents, the succulent biome forms a coherent trans‐continental evolutionary arena for drought‐adapted tropical biome conserved lineages. Recognizing the important functional differences between the succulent‐rich, grass‐poor, fire‐free succulent biome and the grass‐dominated, succulent‐poor, fire‐prone savanna biome, and defining them as distinct seasonally dry tropical biomes, occupying essentially non‐overlapping distributions, provides critical insights into tropical biodiversity and the extent of biome stasis versus biome shifting.
Keywords	Angiospermae ; biodiversity ; cacti and succulents ; ecosystems ; forests ; models ; phylogeny ; savannas ; shrublands ; tropics
Language	English
Dates of publication	2020-07
Size	p. 1100-1113.
Publishing place	John Wiley & Sons, Ltd
Document type	Article
Note	JOURNAL ARTICLE
ZDB-ID	2021283-5
ISSN	1466-8238 ; 1466-822X ; 0960-7447
ISSN (online)	1466-8238
ISSN	1466-822X ; 0960-7447
DOI	10.1111/geb.13089
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Article: Is whitebark pine less sensitive to climate warming when climate tolerances of juveniles are considered?

Hansen, Andrew J / East, Alyson / Keane, Robert E / Lavin, Matt / Legg, Kristin / Holden, Zachary / Toney, Chris / Alongi, Franklin

Forest ecology and management. 2021 Aug. 01, v. 493

2021

Abstract: Whitebark pine (Pinus albicaulis) (PIAL) is a proposed threatened species that plays a keystone ecological role in the Greater Yellowstone Ecosystem (GYE). Its population response to climate change is of high interest to managers because climate-induced ... ...

Abstract	Whitebark pine (Pinus albicaulis) (PIAL) is a proposed threatened species that plays a keystone ecological role in the Greater Yellowstone Ecosystem (GYE). Its population response to climate change is of high interest to managers because climate-induced declines may adversely affect critical ecosystem services that this species provides. While previous studies of reproductive size classes of the species have projected dramatic reductions in area of suitable habitat under climate warming scenarios, it has been suggested that the species can tolerate warmer and drier conditions if seedlings and saplings are not competitively excluded by other conifer species. Thus, we asked if juvenile-sized PIAL are found in warmer and drier locations than larger individuals, under the assumption that competitive exclusion would require several years to decades to influence the distribution of regenerating PIAL. We used a new genetic technique to distinguish non-cone bearing PIAL from the more warm-dry tolerant limber pine (P. flexilis) among samples collected along transects extending from lower treeline to the subalpine around the GYE. Predictor data on climate and water balance were obtained from a 250-m spatially explicit data product. We used a stochastic gradient boosting model to predict probability of presence of PIAL < 1 cm dbh (diameter at breast height) and >=1 cm dbh as a function of these predictors. We discovered that smaller diameter PIAL were not proportionally more abundant at lower elevations, suggesting that competitive exclusion may not be the primary mechanism limiting this species' low elevation distribution. In contrast, the small size class PIAL were slightly less warm-dry tolerant than larger individuals. This suggests that the zone of regeneration of PIAL has shifted upwards in elevation in recent decades, perhaps associated with the observed warming in the GYE. In comparison to a previous study of reproductive-sized trees (>20 cm dbh) from a coarser (1.6 km) sampling frame, however, the predicted zone of suitable habitat of PIAL (<1 cm dbh) was 122 m lower in elevation. We conclude that consideration of the fine-scale distribution of PIAL near lower treeline suggests that the tree species is slightly less sensitive to climate warming than found by previous studies of reproductive-sized trees, but, nonetheless, large range contractions of PIAL in GYE are likely under projected future climates.
Keywords	Pinus albicaulis ; Pinus flexilis ; administrative management ; altitude ; climatic factors ; competitive exclusion ; conifers ; ecosystems ; forest ecology ; habitats ; probability ; threatened species ; tree and stand measurements ; treeline
Language	English
Dates of publication	2021-0801
Publishing place	Elsevier B.V.
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	751138-3
ISSN	0378-1127
ISSN	0378-1127
DOI	10.1016/j.foreco.2021.119221
Database	NAL-Catalogue (AGRICOLA)

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Article: Peltiera (Fabaceae), the coming and going of an âextinctâ genus in Madagascar

Thulin, Mats / Lavin Matt / Phillipson Peter B

Adansonia. 2013 June, v. 35, no. 1

2013

Abstract: Peltiera Du Puy & Labat is a Malagasy genus of two described species thought probably to be extinct at the time of its publication in 1997, when it was known only from a total of three pre-1950 collections. However, recent field work in east-central ... ...

Abstract	Peltiera Du Puy & Labat is a Malagasy genus of two described species thought probably to be extinct at the time of its publication in 1997, when it was known only from a total of three pre-1950 collections. However, recent field work in east-central Madagascar has resulted in the discovery of still extant populations, and therefore it is now possible to reconsider the phylogenetic position and status of the genus and its two species. Phylogenetic analyses based on molecular (chloroplast trnK and nuclear ribosomal ITS sequences) and morphological data corroborate the close relationship between Peltiera and Ormocarpopsis R. Vig., a genus of six species, also endemic to Madagascar. Peltiera differs from Ormocarpopsis mainly by having articulated, dehiscent fruits, and the two genera together are, in turn, sister to the widespread but mainly African Ormocarpum P. Beauv. Morphological, distributional and habitat data gathered from the new collections show that only a single species of Peltiera can be recognized, and as this species shares important synapomorphies with all species of Ormocarpopsis, it is transferred to this genus as O. nitida, comb. nov. A distribution map and photographs of O. nitida comb. nov. are presented, and a conservation threat analysis of the species is provided. The name Ormocarpopsis is lectotypified and an amended description of the genus with its new circumscription is given.
Keywords	chloroplasts ; fruits ; habitats ; internal transcribed spacers ; lectotypes ; new combination ; Ormocarpopsis ; Ormocarpum ; Peltiera ; photographs ; synapomorphy ; Madagascar
Language	English
Dates of publication	2013-06
Size	p. 61-71.
Publishing place	National Museum of Natural History
Document type	Article
ISSN	1280-8571
DOI	10.5252%2Fa2013n1a6
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Article: The Impact of Ecology and Biogeography on Legume Diversity, Endemism, and Phylogeny in the Caribbean Region: A New Direction in Historical Biogeography

Lavin, Matt / Matos, Angela Beyra

Botanical review. 2008 Mar., v. 74, no. 1

2008

Keywords	Fabaceae ; phytogeography ; plant ecology ; indigenous species ; phylogeny ; molecular systematics ; evolution ; center of diversity ; tropical forests ; vegetation ; islands ; seed dispersal ; speciation ; Caribbean
Language	English
Dates of publication	2008-03
Size	p. 178-196.
Document type	Article
Note	Summary in Spanish.
ZDB-ID	207946-x
ISSN	0006-8101
ISSN	0006-8101
DOI	10.1007/s12229-008-9006-8
Database	NAL-Catalogue (AGRICOLA)

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Article: Coursetia (Leguminosae) from Eastern Brazil: Nuclear Ribosomal and Chloroplast DNA Sequence Analysis Reveal the Monophyly of Three Caatinga-Inhabiting Species

Queiroz, Luciano Paganucci de / Lavin, Matt

Systematic botany. 2011 Jan., v. 36, no. 1

2011

Abstract: Three woody species of Coursetia from eastern Brazil are here classified into the Rostrata clade, Coursetia caatingicola, C. rostrata, and C. vicioides. All come from the Southern Sertaneja Depression of the caatinga, and the first of these is herein ... ...

Abstract	Three woody species of Coursetia from eastern Brazil are here classified into the Rostrata clade, Coursetia caatingicola, C. rostrata, and C. vicioides. All come from the Southern Sertaneja Depression of the caatinga, and the first of these is herein described. The antiquity of this geographically confined clade is suggested by its phylogenetic isolation within Coursetia and minimum age estimates of about 9 Ma for each of the species stem clades and about 17 Ma for the Rostrata stem. These age estimates were biased young and are associated with ITS rates of substitution of about 2–3 × 10(-9) substitutions per site per year, an expected rate for woody plant lineages. Multiple DNA sequence accessions coalesce with respect to nuclear ribosomal 5.8S and internal transcribed spacer (ITS) sequences for Coursetia caatingicola and C. rostrata, and with respect to chloroplast trnD-T sequences for Coursetia caatingicola. Coalescence of conspecific nuclear DNA sequence samples combined with relatively old minimum age estimates are suggestive of the evolutionary stability of local patches of seasonally dry tropical vegetation that are rich in succulent taxa. This phylogenetic signature is more likely to be found in lineages harbored by this than other types of Neotropical vegetation.
Keywords	Coursetia ; chloroplast DNA ; chloroplasts ; internal transcribed spacers ; monophyly ; nuclear genome ; ribosomal DNA ; sequence analysis ; tropics ; vegetation ; woody plants ; Brazil
Language	English
Size	p. 69-79.
Publishing place	American Society of Plant Taxonomists
Document type	Article
ZDB-ID	2052625-8
ISSN	1548-2324 ; 0363-6445
ISSN (online)	1548-2324
ISSN	0363-6445
DOI	10.1600/036364411X553144
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Article: A Phylogenetic Analysis of Molecular and Morphological Data Reveals a Paraphyletic Poecilanthe (Leguminosae, Papilionoideae)

Meireles, Jose Eduardo / Tozzi, Ana Maria G. Azevedo / Lavin, Matt

Systematic botany. 2014 Sept. 3, v. 39, no. 4

2014

Abstract: Separate and combined Maximum Likelihood and Bayesian analyses of the papilionoid legume genus Poecilanthe sensu lato (Leguminosae) and other Genistoid genera were performed using molecular (nuclear ribosomal and chloroplast matK) and morphological data. ...

Abstract	Separate and combined Maximum Likelihood and Bayesian analyses of the papilionoid legume genus Poecilanthe sensu lato (Leguminosae) and other Genistoid genera were performed using molecular (nuclear ribosomal and chloroplast matK) and morphological data. The data are in excellent agreement that Poecilanthe is paraphyletic with respect to other genera of the tribe Brongniartieae. Each of the three independent lineages of Poecilanthe sensu lato combines a morphological, geographical, and ecological distinction. They will be ranked at the genus level and Poecilanthe sensu stricto is recircumscribed to encompass the extra-Amazonian species that occur in highly seasonal dry forests.
Keywords	Poecilanthe ; chloroplasts ; dry forests ; legumes ; paraphyly ; plant taxonomy
Language	English
Dates of publication	2014-0903
Size	p. 1142-1149.
Publishing place	American Society of Plant Toxonomists
Document type	Article
ZDB-ID	2052625-8
ISSN	1548-2324 ; 0363-6445
ISSN (online)	1548-2324
ISSN	0363-6445
DOI	10.1600%2F036364414X683912
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