Research graph
References from Trapped in the cradle: Karst formation isolates an ancient lineage of wren-babbler (Gypsophila) leading to cryptic speciation. Local targets link to admitted publications; unresolved targets remain external evidence.
Fast model-based estimation of ancestry in unrelated individuals
10.1101/gr.094052.109 · 2009 · External reference
Description of a new species of Phylloscopus warbler from Vietnam and Laos
10.1111/j.1474-919x.2009.00990.x · 2010 · External reference
The Arctic Warbler Phylloscopus borealis – three anciently separated cryptic species revealed
10.1111/j.1474-919x.2011.01116.x · 2011 · External reference
Unresolved reference
2010 · External reference
Phylogenetic relationships and systematics of the bamboo-specialist Amaurospiza blue seedeaters
10.1111/ibi.13181 · 2023 · External reference
Intraspecific phylogeography: The mitochondrial DNA bridge between population genetics and systematics
10.1146/annurev.es.18.110187.002421 · 1987 · External reference
GTRpmix: A linked general time-reversible model for profile mixture models
10.1093/molbev/msae174 · 2024 · External reference
Spatial distribution and development of soils in tropical karst areas from the Peninsula of Yucatan, Mexico
10.1016/j.geomorph.2011.02.014 · 2011 · External reference
Geochemical characteristics and behaviour of elements during weathering and pedogenesis over karst area in Yunnan–Guizhou Plateau, southwestern China
10.1007/s12665-020-09343-2 · 2021 · External reference
Cryptic species as a window on diversity and conservation
10.1016/j.tree.2006.11.004 · 2007 · External reference
Museomics unravels cryptic diversity in an endemic group of New Guinean songbirds
10.1098/rsbl.2024.0611 · 2025 · External reference
Integrating genomic and vocal evidence to reassess species' limits and the biogeography of a widely distributed Neotropical passerine, the white-throated spadebill, Platyrinchus mystaceus (Aves: Platyrhinchidae)
10.1093/zoolinnean/zlaf197 · 2026 · External reference
Trimmomatic: a flexible trimmer for Illumina sequence data
10.1093/bioinformatics/btu170 · 2014 · External reference
Adaptive processes drive ecomorphological convergent evolution in antwrens (Thamnophilidae)
10.1111/evo.12506 · 2014 · External reference
Near-complete phylogeny and taxonomic revision of the world's babblers (Aves: Passeriformes)
10.1016/j.ympev.2018.10.010 · 2019 · External reference
The role of evolutionary time, diversification rates and dispersal in determining the global diversity of a large radiation of passerine birds
10.1111/jbi.13823 · 2020 · External reference
Accelerated modern human–induced species losses: Entering the sixth mass extinction
10.1126/sciadv.1400253 · 2015 · External reference
Gene flow creates a mirage of cryptic species in a Southeast Asian spotted stream frog complex
10.1111/mec.15603 · 2020 · External reference
Second-generation PLINK: rising to the challenge of larger and richer datasets
10.1186/s13742-015-0047-8 · 2015 · External reference
Phylogenetic analyses of Begonia sect. Coelocentrum and allied limestone species of China shed light on the evolution of Sino-Vietnamese karst flora
10.1186/1999-3110-55-1 · 2014 · External reference
A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118
10.4161/fly.19695 · 2012 · External reference
Unresolved reference
External reference
Genetic diversity and conservation units: dealing with the species-population continuum in the age of genomics
10.3389/fevo.2018.00165 · 2018 · External reference
Streaked Wren-Babbler (Gypsophila brevicaudata), version 1.1
2021 · External reference
The sixth mass extinction: fact, fiction or speculation?
10.1111/brv.12816 · 2022 · External reference
The variant call format and VCFtools
10.1093/bioinformatics/btr330 · 2011 · External reference
Twelve years of SAMtools and BCFtools
10.1093/gigascience/giab008 · 2021 · External reference
Multi-character taxonomic review, systematics, and biogeography of the Black-capped/Tawny-bellied Screech Owl (Megascops atricapilla-M. watsonii) complex (Aves: Strigidae)
10.11646/zootaxa.4949.3.1 · 2021 · External reference
Species delimitation using genome-wide estimates of Dxy and Fst
2025 · External reference
The general lineage concept of species and the defining properties of the species category
1999 · External reference
Species concepts and species delimitation
10.1080/10635150701701083 · 2007 · External reference
Gene tree discordance, phylogenetic inference and the multispecies coalescent
10.1016/j.tree.2009.01.009 · 2009 · External reference
HBW and BirdLife International Illustrated Checklist of the Birds of the World
2014 · External reference
Unresolved reference
2014 · External reference
Darwinian shortfalls in biodiversity conservation
10.1016/j.tree.2013.09.003 · 2013 · External reference
Ice age unfrozen: severe effect of the last interglacial, not glacial, climate change on East Asian avifauna
10.1186/s12862-017-1100-2 · 2017 · External reference
Genomic architecture and introgression shape a butterfly radiation
10.1126/science.aaw2090 · 2019 · External reference
Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics
10.1016/j.ympev.2015.10.027 · 2016 · External reference
Morphological and genetic analyses reveal a cryptic species complex in the echinoid Echinocardium cordatum and rule out a stabilizing selection explanation
10.1016/j.ympev.2015.07.023 · 2016 · External reference
The genomic landscape of species divergence in Ficedula flycatchers
10.1038/nature11584 · 2012 · External reference
OrthoFinder: phylogenetic orthology inference for comparative genomics
10.1186/s13059-019-1832-y · 2019 · External reference
Unresolved reference
2023 · External reference
Incomplete lineage sorting and phenotypic evolution in marsupials
10.1016/j.cell.2022.03.034 · 2022 · External reference
Dense sampling of bird diversity increases power of comparative genomics
10.1038/s41586-020-2873-9 · 2020 · External reference
WorldClim 2: new 1-km spatial resolution climate surfaces for global land areas
10.1002/joc.5086 · 2017 · External reference
Cryptic species as a window into the paradigm shift of the species concept
10.1111/mec.14486 · 2018 · External reference
OptM: estimating the optimal number of migration edges on population trees using Treemix
10.1093/biomethods/bpab017 · 2021 · External reference
Extensive introgression in a malaria vector species complex revealed by phylogenomics
10.1126/science.1258524 · 2015 · External reference
Geographical pattern of isolation and diversification in karst habitat islands: a case study in the Primulina eburnea complex
10.1111/jbi.12576 · 2015 · External reference
Unresolved reference
2025 · External reference
Unresolved reference
External reference
Google Earth Engine: Planetary-scale geospatial analysis for everyone
10.1016/j.rse.2017.06.031 · 2017 · External reference
Relict species: a relict concept?
10.1016/j.tree.2014.10.002 · 2014 · External reference
The interplay of colour and bioacoustic traits in the differentiation of a Southeast Asian songbird complex
10.1111/mec.15718 · 2021 · External reference
Integrative taxonomy reveals hidden diversity in the Catharus fuscater (Passeriformes: Turdidae) complex in Central and South America
10.1093/zoolinnean/zlad031 · 2023 · External reference
Understanding inbreeding depression, purging, and genetic rescue
10.1016/j.tree.2016.09.005 · 2016 · External reference
Cryptic species conservation: a review
10.1111/brv.13139 · 2025 · External reference
Phylogenomic approaches to detecting and characterizing introgression
2022 · External reference
UFBoot2: Improving the Ultrafast Bootstrap Approximation
10.1093/molbev/msx281 · 2018 · External reference
Genetic structure of the Cave-Dwelling Catfish Pterocryptis anomala (Siluriformes: Siluridae) in Southwest China
10.3390/ani15091202 · 2025 · External reference
New perspectives on lateritic weathering process over karst area – Geochemistry and Si-Li isotopic evidence
10.1016/j.catena.2020.105022 · 2021 · External reference
Geochemistry of red residua underlying dolomites in karst terrains of Yunnan-Guizhou Plateau: I. The formation of the Pingba profile
10.1016/j.chemgeo.2003.08.012 · 2004 · External reference
Soil types and eolian dust in high-mountainous karst of the Northern Calcareous Alps (Zugspitzplatt, Wetterstein Mountains, Germany)
10.1016/s0341-8162(03)00075-4 · 2003 · External reference
A new species of nightjar (Caprimulgus) from Timor and Wetar, Lesser Sunda Islands, Wallacea
10.1111/ibi.13340 · 2024 · External reference
pixy: Unbiased estimation of nucleotide diversity and divergence in the presence of missing data
10.1111/1755-0998.13326 · 2021 · External reference
Climatic zonation drives latitudinal variation in speciation mechanisms
10.1098/rspb.2007.1106 · 2007 · External reference
Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm
10.1038/nprot.2009.86 · 2009 · External reference
Enhancing inbreeding estimation and global conservation insights through chromosome-level assemblies of the Chinese and Malayan pangolin
10.1093/gigascience/giaf003 · 2025 · External reference
A review on studies of speciation in the presence of gene flow: evolution of reproductive isolation
10.3724/sp.j.1003.2014.13143 · 2014 · External reference
Integrative revision of species limits in the genus Schiffornis (Aves: Tityridae) reveals cryptic diversity in the Neotropics
10.1093/zoolinnean/zlad108 · 2024 · External reference
Undescribed species have higher extinction risk than known species
10.1111/conl.12876 · 2022 · External reference
PSMC (pairwise sequentially Markovian coalescent) analysis of RAD (restriction site associated DNA) sequencing data
10.1111/1755-0998.12606 · 2017 · External reference
Unresolved reference
2004 · External reference
Models of karst geomorphological evolutions in China
1986 · External reference
Formation and evolution of the Asian landscape during the Cenozoic
10.59717/j.xinn-geo.2023.100020 · 2023 · External reference
Analysis of the physiographic stages of the development and evolution process of karst geomorphology in Guilin, China
2023 · External reference
Mitogenomic analysis reveals two cryptic lineages and provides insights into the historical biogeography of the genus Pseudohynobius (Caudata, Hynobiidae)
10.3897/zse.101.153576 · 2025 · External reference
Evolution in karst massifs: Cryptic diversity among bent-toed geckos along the Truong Son Range with descriptions of three new species and one new country record from Laos
10.11646/zootaxa.4107.2.1 · 2016 · External reference
Demographic history and identification of threats revealed by population genomic analysis provide insights into conservation for an endangered maple
10.1111/mec.16289 · 2022 · External reference
On the limits of fitting complex models of population history to f-statistics
10.7554/elife.85492 · 2023 · External reference
Dsuite-Fast D-statistics and related admixture evidence from VCF files
10.1111/1755-0998.13265 · 2021 · External reference
Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow
10.1038/s41559-018-0717-x · 2018 · External reference
A model-free method for genealogical inference without phasing and its application for topology weighting
10.1093/genetics/iyaf181 · 2026 · External reference
Gene tree discordance causes apparent substitution rate variation
10.1093/sysbio/syw018 · 2016 · External reference
The impact of taxonomic change on conservation: Does it kill, can it save, or is it just irrelevant?
10.1016/j.biocon.2009.07.019 · 2009 · External reference
Phylogeny and biogeography of the Core Babblers (Aves: Timaliidae)
10.1093/sysbio/sys027 · 2012 · External reference
Biodiversity hotspots for conservation priorities
10.1038/35002501 · 2000 · External reference
Resolving Evolutionary relationships in closely related species with Whole-Genome sequencing data
10.1093/sysbio/syv045 · 2015 · External reference
Extraordinary diversity among allopatric species in the genus Goniurosaurus (Squamata: Eublepharidae): understanding niche evolution and the need of conservation measures
10.1007/s10531-023-02564-4 · 2023 · External reference
Unresolved reference
External reference
Global hotspots of species richness are not congruent with endemism or threat
10.1038/nature03850 · 2005 · External reference
Pilot biodiversity assessment of the Hkakabo Razi passerine avifauna in northern Myanmar – implications for conservation from molecular genetics
10.1017/s0959270919000273 · 2020 · External reference
Visualizing spatial population structure with estimated effective migration surfaces
10.1038/ng.3464 · 2016 · External reference
Opening the black box: an open-source release of Maxent
10.1111/ecog.03049 · 2017 · External reference
Broad Inst
2019 · External reference
Inference of population splits and mixtures from genome-wide allele frequency data
10.1371/journal.pgen.1002967 · 2012 · External reference
Identification of morphologically cryptic species with computer vision models: wall lizards (Squamata: Lacertidae: Podarcis) as a case study
10.1093/zoolinnean/zlac087 · 2023 · External reference
Cryptic diversity and species boundaries within the Paragalago zanzibaricus species complex
10.1016/j.ympev.2020.106887 · 2020 · External reference
Phylogeographic insights into cryptic glacial refugia
10.1016/j.tree.2008.06.010 · 2008 · External reference
The formation of avian montane diversity across barriers and along elevational gradients
10.1038/s41467-021-27858-5 · 2022 · External reference
Phylogenetic niche conservatism and the evolutionary basis of ecological speciation
10.1111/brv.12154 · 2015 · External reference
MACSE v2: Toolkit for the alignment of coding sequences accounting for frameshifts and stop codons
10.1093/molbev/msy159 · 2018 · External reference
MixtureFinder: Estimating DNA mixture models for phylogenetic analyses
10.1093/molbev/msae264 · 2025 · External reference
Genetic introgression, incomplete lineage sorting and faulty taxonomy create multiple cases of polyphyly in a montane clade of tyrant-flycatchers (Elaenia, Tyrannidae)
10.1111/j.1463-6409.2008.00369.x · 2009 · External reference
AviList: a unified global bird checklist
10.1007/s10531-025-03120-y · 2025 · External reference
Genetic introgression: an integral but neglected component of speciation in birds
10.1525/auk.2011.128.4.620 · 2011 · External reference
Genomic signatures of extensive inbreeding in Isle Royale wolves, a population on the threshold of extinction
10.1126/sciadv.aau0757 · 2019 · External reference
Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance
10.1093/genetics/145.4.1219 · 1997 · External reference
MAFFT-DASH: Integrated protein sequence and structural alignment
2019 · External reference
Discovering and protecting cryptic biodiversity: A case study of a previously undescribed, vulnerable bird species in Japan
10.1093/pnasnexus/pgag037 · 2026 · External reference
Integrative taxonomy of eared nightjars (Aves: Lyncornis) underscores the complementarity of morphology, vocalizations and DNA evidence
10.1093/zoolinnean/zlac037 · 2022 · External reference
Integrative taxonomy documents two additional cryptic Erithacus species on the Canary Islands (Aves)
10.1111/zsc.12561 · 2022 · External reference
Return to the Malay Archipelago: the biogeography of Sundaic rainforest birds
10.1007/s10336-015-1188-3 · 2015 · External reference
A genomic perspective on species delimitation
10.1146/annurev-ecolsys-102723-055311 · 2025 · External reference
Operational criteria for delimiting species
10.1146/annurev.ecolsys.35.112202.130128 · 2004 · External reference
The drivers of tropical speciation
10.1038/nature13687 · 2014 · External reference
Phylogeography of the Alcippe morrisonia (Aves: Timaliidae): long population history beyond late Pleistocene glaciations
10.1186/1471-2148-9-143 · 2009 · External reference
Finding evolutionary processes hidden in cryptic species
10.1016/j.tree.2017.11.007 · 2018 · External reference
Cryptic species and their evolutionary significance
2019 · External reference
HiMT: An integrative toolkit for assembling organelle genomes using HiFi reads
10.1016/j.xplc.2025.101467 · 2025 · External reference
Cryptic species and independent origins of allochronic populations within a seabird species complex (Hydrobates spp.)
10.1016/j.ympev.2019.106552 · 2019 · External reference
Robust and scalable inference of population history from hundreds of unphased whole genomes
10.1038/ng.3748 · 2017 · External reference
GeSeq–versatile and accurate annotation of organelle genomes
10.1093/nar/gkx391 · 2017 · External reference
The biogeography of mitochondrial and nuclear discordance in animals
10.1111/j.1365-294x.2012.05664.x · 2012 · External reference
Review: Biodiversity of forests over limestone in Southeast Asia with emphasis on the Philippines
2020 · External reference
Morphological variation in birds: plasticity, adaptation, and speciation
2018 · External reference
The role of loamy sediment (terra rossa) in the context of steady state karst surface lowering
10.1016/j.geomorph.2008.09.024 · 2009 · External reference
Unresolved reference
2020 · External reference
Efficient architecture-aware acceleration of BWA-MEM for multicore systems
2019 · External reference
Addressing the Linnean shortfall in a cryptic species complex
10.1093/zoolinnean/zlaa099 · 2021 · External reference
Examining the full effects of landscape heterogeneity on spatial genetic variation: a multiple matrix regression approach for quantifying geographic and ecological isolation
10.1111/evo.12134 · 2013 · External reference
Molecular phylogeny and historical biogeography of the cave fish genus Sinocyclocheilus (Cypriniformes: Cyprinidae) in southwest China
10.1111/1749-4877.12624 · 2022 · External reference
IQ-TREE 3: phylogenomic inference software using complex evolutionary models
10.1093/molbev/msag117 · 2026 · External reference
Mountain gorilla genomes reveal the impact of long-term population decline and inbreeding
10.1126/science.aaa3952 · 2015 · External reference
Bayesian estimation of species divergence times under a molecular clock using multiple fossil calibrations with soft bounds
10.1093/molbev/msj024 · 2006 · External reference
New chronological constraints on the Plio-Pleistocene uplift of the Guizhou Plateau, SE margin of the Tibetan Plateau
2022 · External reference
Late miocene elevated horizontal karst caves and landform evolution as a response to tectonic uplift along with regional integration of fluvial drainage in southwestern China
10.1007/s12583-022-1656-7 · 2025 · External reference
Comparative genomics reveals insights into avian genome evolution and adaptation
10.1126/science.1251385 · 2014 · External reference
Evolution of Asian monsoons and phased uplift of the Himalaya–Tibetan plateau since Late Miocene times
10.1038/35075035 · 2001 · External reference
New subspecies and new records of birds (Chapter 9: Wildlife resources, Section 1: Faunal composition)
1999 · External reference
