Generalizing Bayesian phylogenetics to infer shared evolutionary events DOI Creative Commons
Jamie R. Oaks, Perry L. Wood, Cameron D. Siler

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2021, Volume and Issue: unknown

Published: July 26, 2021

Abstract Many processes of biological diversification can simultaneously affect multiple evolutionary lineages. Examples include members a gene family diverging when region chromosome is duplicated, viral strains at “super-spreading” event, and geological event fragmenting whole communities species. It difficult to test for patterns shared divergences predicted by such processes, because all phylogenetic methods assume that lineages diverge independently. We introduce Bayesian approach relax the assumption independent, bifurcating expanding space topologies trees with multifurcating divergences. This allows us jointly infer relationships, divergence times, or lead more than two descendant Using simulations, we find new method accurately infers events they occur, performs as well current are independent bifurcating. apply our genomic data from genera geckos across Philippines if past changes islands’ landscape caused bursts speciation. Unlike previous analyses restricted only pairs gecko populations, evidence By generalizing in way likelihood model, opens many avenues future research into life sciences. Significance statement Phylogenetic models have long assumed Processes interest biogeography, epidemiology, genome evolution, violate this affecting To conceptualizing, modeling, inferring trees. distributed Philippines, support repeated fragmentation archipelago interglacial rises sea level.

Language: Английский

A new species in the Cyrtodactylus oldhami group (Squamata, Gekkonidae) from Kanchanaburi Province, western Thailand DOI Creative Commons
Siriporn Yodthong, Attapol Rujirawan,

Bryan L. Stuart

et al.

ZooKeys, Journal Year: 2022, Volume and Issue: 1103, P. 139 - 169

Published: June 2, 2022

Cyrtodactylusmonilatussp. nov. is described from Si Sawat District, Kanchanaburi Province, in western Thailand. The new species superficially resembles C.zebraicus Taylor, 1962 southern However, differences between the and other congeners were supported by an integrative taxonomic analysis of molecular morphological data. Phylogenetic analyses based on mitochondrial NADH dehydrogenase subunit 2 (ND2) gene showed that a member C.oldhami group closely related to Cyrtodactylus sp. MT468911 Thong Pha Phum National Park, Province. Uncorrected pairwise genetic divergences (p-distances) its congeners, including C.zebraicus, ranged 7.7-17.7%. can also be distinguished all members having unique combination characters, snout vent length 53.7-63.3 mm adult males 58.6-75.8 females; 22-34 paravertebral tubercles; 34-42 ventral scales; 30-39 enlarged contiguous femoroprecloacal femoral pores precloacal absent both sexes; four or five rows postprecloacal median subcaudal scales absent; weak ventrolateral folds present; 4-7 paired, paravertebral, dark-brown blotches edged yellow yellowish white; two small, diffuse, white spots flanks. occurs narrow range forest at mid low elevations associated with karst landscapes Tenasserim mountain range.

Language: Английский

Citations

9
Scratching the surface: a new species of Bent-toed gecko (Squamata, Gekkonidae, Cyrtodactylus) from Timor-Leste of the darmandvillei group marks the potential for future discoveries DOI Creative Commons
Kin Onn Chan, L. Lee Grismer, Fernando Santana

et al.

ZooKeys, Journal Year: 2023, Volume and Issue: 1139, P. 107 - 126

Published: Jan. 11, 2023

A new species of limestone-dwelling Bent-toed gecko (genus Cyrtodactylus) is described from Nino Konis Santana National Park in the far-east region Timor-Leste. Both genetic and morphological data strongly support evolutionary distinctness species, which we describe herein as Cyrtodactylussantanasp. nov. Phylogenetic analysis based on ND2 mitochondrial gene inferred part C.darmandvillei group with close affinities to C.batucolus, C.seribuatensis, C.petani, C.sadleiri, two undescribed lineages Moluccas Indonesia. The represents first Cyrtodactylus identified at level Timor-Leste fills an important gap our understanding biogeography history especially Wallacean region. Our results suggest that diversity Wallacea still underestimated many more unnamed remain be described.

Language: Английский

Citations

5
Two new karst-adapted species in the Cyrtodactylus pulchellus group (Reptilia, Gekkonidae) from southern Thailand DOI Creative Commons
Korkhwan Termprayoon, Attapol Rujirawan, L. Lee Grismer

et al.

ZooKeys, Journal Year: 2023, Volume and Issue: 1179, P. 313 - 352

Published: Sept. 14, 2023

The exploration of unsurveyed areas in southern Thailand discovered two new karst-adapted species, Cyrtodactylussungaiupesp. nov. and Cyrtodactyluswangkhramensissp. nov., from Thung Wa La-ngu Districts, Satun Province, respectively. These species are members the C.pulchellus group that occur along Thai-Malay Peninsula. can be distinguished all other congeners by their key morphological characters genetic divergence. Morphologically, diagnosed having a combination differences body size; degree dorsal tuberculation; absence tubercles on ventral surfaces; number scales, paravertebral femoroprecloacal pores males only; deep precloacal groove only males; scattered pattern white tubercles; dark bands; extent caudal an original tail. Although sister taxa have nearly identical morphologies, they considered to different based relatively high uncorrected pairwise divergence mitochondrial ND2 gene (6.59-6.89%), statistically significant univariate multivariate (PERMANOVA ANOVA) diagnostic characteristics tuberculation Moreover, currently restricted karstic type localities which may serve as geographic barrier dispersal flow.

Language: Английский

Citations

5
Hiding on jagged karst pinnacles: A new microendemic genus and species of a limestone-dwelling agamid lizard (Squamata: Agamidae: Draconinae) from Khammouan Province, Laos DOI Open Access
Saly Sitthivong, Peter Brakels, Santi Xayyasith

et al.

动物学研究, Journal Year: 2023, Volume and Issue: 44(6), P. 1039 - 1051

Published: Jan. 1, 2023

We describe a unique new species and genus of agamid lizard from the karstic massifs Khammouan Province, central Laos. Laodracon carsticola Gen. et sp. nov. is an elusive medium-sized (maximum snout-vent length 101 mm) specifically adapted to life on limestone rocks pinnacles. To assess phylogenetic position amongst other agamids, we generated DNA sequences two mitochondrial gene fragments (16S rRNA ND2) three nuclear loci (BDNF, RAG1 c-mos), with final alignment comprising 7 418 base pairs for 64 species. Phylogenetic analyses unambiguously place in mainland Asia subfamily Draconinae, where it forms clade sister Diploderma East northern part Southeast Asia. Morphologically, distinguished all genera Draconinae by possessing notably swollen tail enlarged scales its dorsal ventral surfaces. Our work provides further evidence that regions Indochina represent "arks biodiversity" harbor numerous relict lineages. date, known only adult male specimens distribution seems be restricted narrow massif border Bolikhamxai provinces Additional studies are required understand history, distribution, conservation status.

Language: Английский

Citations

5
Ecologically‐related variation of digit morphology in Cyrtodactylus (Gekkota, Squamata) reveals repeated origins of incipient adhesive toepads DOI Creative Commons
Jendrian Riedel,

K Eisele,

Mariam Gabelaia

et al.

Functional Ecology, Journal Year: 2024, Volume and Issue: 38(7), P. 1630 - 1648

Published: May 30, 2024

Abstract Exploitation of different locomotor substrates in ecological niches has driven the evolution specialized morphological structures, and similar demands, such as structure microhabitat, often lead to convergent or parallel evolution. The adhesive toepads geckos remains understudied because paucity phylogenetically‐informed investigations candidate clades exhibiting purported incipient expression these (i.e. species having evolved some, but not all, parts complex system pad‐bearing geckos). Using Cyrtodactylus , a speciose genus with well‐established ecotypes, we tested hypothesis that microhabitats require more climbing will acquisition morphology. We measured subdigital scale area, proxy for toepad evolution, quantified shape 77 354 described species, including at least one representative each ecotype. Subdigital area increased from terrestrial through generalist saxicoline (rock‐dwelling) arboreal evolving ancestral conditions padless lizards lateromedially expanded lamella‐like scales only ecotypes. This significant link between phenotype environment supports contention scansorial, particularly arboreal, ecotypes have incipiently expressed toepads. highlights suitability this model studying ecology well being promising research on adaptive radiations. Read free Plain Language Summary article Journal blog.

Language: Английский

Citations

1
A New Species of Cyrtodactylus tibetanus Group (Reptilia: Squamata: Gekkonidae) from Xizang Autonomous Region, China DOI Creative Commons
Shun Ma, Shengchao Shi, Tianyu Qian

et al.

Animals, Journal Year: 2024, Volume and Issue: 14(16), P. 2384 - 2384

Published: Aug. 17, 2024

A new

Language: Английский

Citations

1
A multi-gene phylogeny of the Asian kukri snakes (Oligodon Fitzinger, 1826): Sharpening the blade of the second largest serpent radiation (Reptilia: Squamata: Colubridae) DOI
Justin L. Lee, Platon V. Yushchenko,

Chatmongkon Suwannapoom

et al.

Molecular Phylogenetics and Evolution, Journal Year: 2024, Volume and Issue: 201, P. 108215 - 108215

Published: Oct. 11, 2024

Language: Английский

Citations

1
Generalizing Bayesian phylogenetics to infer shared evolutionary events DOI Creative Commons
Jamie R. Oaks, Perry L. Wood, Cameron D. Siler

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2022, Volume and Issue: 119(29)

Published: July 15, 2022

Many processes of biological diversification can simultaneously affect multiple evolutionary lineages. Examples include members a gene family diverging when region chromosome is duplicated, viral strains at “super-spreading” event, and geological event fragmenting whole communities species. It difficult to test for patterns shared divergences predicted by such because all phylogenetic methods assume that lineages diverge independently. We introduce Bayesian approach relax the assumption independent, bifurcating expanding space topologies trees with multifurcating divergences. This allows us jointly infer relationships, divergence times, or lead more than two descendant Using simulations, we find method accurately infers events they occur performs as well current are independent bifurcating. apply our genomic data from genera geckos across Philippines if past changes islands’ landscape caused bursts speciation. Unlike previous analyses restricted only pairs gecko populations, evidence By generalizing in way likelihood model, opens many avenues future research into life sciences.

Language: Английский

Citations

6
Genetic and morphological concordance and discordance within the Cyrtodactylus brevipalmatus group (Squamata: Gekkonidae) DOI
L. Lee Grismer, Shahrul Anuar Mohd Sah,

Mohd Abdul Muin

et al.

Zootaxa, Journal Year: 2023, Volume and Issue: 5353(3), P. 265 - 275

Published: Oct. 9, 2023

We use data sets from the Cyrtodactylus brevipalmatus group with limited genetic and morphological sampling to demonstrate that not accounting for error may adversely influence decisions regarding species delimitation diagnosis. Lack of geographic between endpoints a species’ range recover notable interpopulational differentiation consistent species-level differentiation. Additionally, small population sample sizes fail statistically different diagnostic differences. Combined, these types can produce results seemingly recognition cryptic species—genetically delimited populations lacking characters. This is current situation within some lineages C. whereas in others, less problematic does jeopardize their taxonomy. note potential negative effects comparative biology as whole if taken into consideration prior constructing taxonomies.

Language: Английский

Citations

1
Another new species of Cyrtodactylus Gray, 1927 (Squamata: Gekkonidae) of the angularis group from the karstic landscape of Phong Nha-Ke Bang National Park, central Vietnam DOI
Tang Van Duong, Vũ Văn Liên,

HIEN THI THU VU

et al.

Zootaxa, Journal Year: 2024, Volume and Issue: 5471(5), P. 555 - 571

Published: June 20, 2024

The Phong Nha-Ke Bang (PNKB National Park in the Central Highlands of Vietnam is a bastion for protection and conservation Vietnam’s natural heritage. Thus, discovery yet another new species Cyrtodactylus, C. hangvaensis sp. nov., within PNKB continues to underscore parks ever-growing importance. Cyrtodactylus nov. karst dwelling angularis group that based on molecular phylogenetic analysis, most closely related roesleri from sommerladi karstic areas nearby Laos. occupies unique position morphospace where it well separated other PNKB. It potentially diagnosable all members by having combination morphological color pattern characters bearing an uncorrected pairwise sequence divergence 9.5%–25.5%.

Language: Английский

Citations

0