{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,28]],"date-time":"2026-07-28T09:59:18Z","timestamp":1785232758307,"version":"3.55.0"},"reference-count":69,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2026,7,9]],"date-time":"2026-07-09T00:00:00Z","timestamp":1783555200000},"content-version":"am","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"Museum f\u00fcr Naturkunde"},{"name":"Center for Integrative Biodiversity Discovery"},{"name":"Berlin Center for Genomics in Biodiversity Research"},{"DOI":"10.13039\/501100007537","name":"Freie Universit\u00e4t Berlin","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100007537","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>The Atyidae is a diverse and old freshwater shrimp family distributed across all continents bar Antarctica. It is particularly speciose in the Indo-Pacific, the domain of its most diverse group, the so-called Caridella group, which includes the largest and taxonomically challenging genus, Caridina. By using a time-calibrated genomic framework, we reconstructed the biogeographic history of the Caridella group. We show that although their evolution is intimately tied to the geological history of the Tethys Ocean, a slow periodic expansion westward provided multiple invasions of Africa. The knowledge gap about African species is further covered by linking the divergence between East and West African taxa to the East African Rift. Meanwhile, sea level oscillations and landscape changes seem to be the major factors responsible for splits within the Indo-Pacific. We show that amphidromy is ancestral and that landlocked species and clades originated through multiple isolations followed by diversification, which might be related to the numerous species complexes found in this group. Constant diversification rates could reinforce this dispersal\u2013isolation\u2013diversification pattern. Our results also include the most robust phylogeny to date, providing the basis for an overdue reassessment of the systematics of the Atyidae, particularly the Caridella group.<\/jats:p>","DOI":"10.1093\/sysbio\/syag047","type":"journal-article","created":{"date-parts":[[2026,7,8]],"date-time":"2026-07-08T11:54:32Z","timestamp":1783511672000},"source":"Crossref","is-referenced-by-count":0,"title":["Phylogenomics Reveals the Intricate History of the Most Diverse Group within Atyidae (Crustacea: Decapoda)"],"prefix":"10.1093","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8350-3727","authenticated-orcid":false,"given":"Samuel C","family":"Bernardes","sequence":"first","affiliation":[{"name":"Museum f\u00fcr Naturkunde, Leibniz Institute for Evolution and Biodiversity Science, Center for Integrative Biodiversity Discovery, Invalidenstra\u00dfe 43, 10115 , Berlin ,","place":["Germany"]},{"name":"Faculty of Life Sciences, Humboldt Universit\u00e4t Berlin, Hannoversche Str. 27, 10115 , Berlin ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas","family":"von\u00a0Rintelen","sequence":"additional","affiliation":[{"name":"Museum f\u00fcr Naturkunde, Leibniz Institute for Evolution and Biodiversity Science, Center for Integrative Biodiversity Discovery, Invalidenstra\u00dfe 43, 10115 , Berlin ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adnan","family":"Moussalli","sequence":"additional","affiliation":[{"name":"Museums Victoria, Nicholson Street 11 , Carlton, Victoria ,","place":["Australia"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Valentin","family":"de\u00a0Mazancourt","sequence":"additional","affiliation":[{"name":"Laboratoire de Biologie des Organismes et \u00c9cosyst\u00e8mes Aquatiques, Mus\u00e9um national d\u2019Histoire naturelle, Rue Cuvier 75, 75005, Sorbonne Universit\u00e9 , UCN, UA, Paris ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kristina","family":"von\u00a0Rintelen","sequence":"additional","affiliation":[{"name":"Museum f\u00fcr Naturkunde, Leibniz Institute for Evolution and Biodiversity Science, Center for Integrative Biodiversity Discovery, Invalidenstra\u00dfe 43, 10115 , Berlin ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,7,9]]},"reference":[{"key":"2026072805113500700_bib1","volume-title":"Curta: a general-purpose high-performance computer at ZEDAT","author":"Bennett","year":"2020"},{"key":"2026072805113500700_bib2","doi-asserted-by":"crossref","first-page":"9044","DOI":"10.1038\/s41598-017-08494-w","article-title":"The complex evolutionary history and phylogeography of Caridina typus (Crustacea: Decapoda): long-distance dispersal and cryptic allopatric species","volume":"7","author":"Bernardes","year":"2017","journal-title":"Sci. Rep."},{"issue":"1","key":"2026072805113500700_bib3","doi-asserted-by":"crossref","first-page":"23357","DOI":"10.1038\/s41598-021-02799-7","article-title":"Ecological changes have driven biotic exchanges across the Indian Ocean","volume":"11","author":"Bernardes","year":"2021","journal-title":"Sci. Rep."},{"issue":"15","key":"2026072805113500700_bib4","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"2026072805113500700_bib5","doi-asserted-by":"crossref","first-page":"e1006650","DOI":"10.1371\/journal.pcbi.1006650","article-title":"BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis","volume":"15","author":"Bouckaert","year":"2019","journal-title":"PLoS Comput. Biol"},{"issue":"1","key":"2026072805113500700_bib6","doi-asserted-by":"crossref","first-page":"421","DOI":"10.1186\/1471-2105-10-421","article-title":"BLAST+: architecture and applications","volume":"10","author":"Camacho","year":"2009","journal-title":"BMC Bioinf."},{"issue":"2","key":"2026072805113500700_bib7","doi-asserted-by":"crossref","first-page":"278","DOI":"10.1651\/10-3331.1","article-title":"Population dynamics of a landlocked and amphidromous freshwater shrimp, Caridina gracilipes (Decapoda: Caridea) in subtropical waters","volume":"31","author":"Chang","year":"2011","journal-title":"J. Crust. Biol."},{"issue":"7","key":"2026072805113500700_bib8","doi-asserted-by":"crossref","first-page":"577","DOI":"10.1007\/BF02875332","article-title":"Suckers (Fish, Catostomidae) from the Eocene of China account for the family\u2019s current disjunct distributions","volume":"44","author":"Chang","year":"2001","journal-title":"Sci. China Ser. D Earth Sci."},{"issue":"2","key":"2026072805113500700_bib9","doi-asserted-by":"crossref","first-page":"119","DOI":"10.2307\/1313537","article-title":"The role of benthic invertebrate species in freshwater ecosystems: zoobenthic species influence energy flows and nutrient cycling","volume":"49","author":"Covich","year":"1999","journal-title":"Bioscience"},{"key":"2026072805113500700_bib10","doi-asserted-by":"crossref","first-page":"775","DOI":"10.1890\/0012-9658(2001)082[0775:FSEODP]2.0.CO;2","article-title":"Freshwater shrimp effects on detrital processing and nutrients in a tropical headwater stream","volume":"82","author":"Crowl","year":"2001","journal-title":"Ecology"},{"issue":"1","key":"2026072805113500700_bib11","doi-asserted-by":"crossref","first-page":"16","DOI":"10.1038\/s42003-018-0018-6","article-title":"Freshwater transitions and symbioses shaped the evolution and extant diversity of caridean shrimps","volume":"1","author":"Davis","year":"2018","journal-title":"Commun Biol"},{"key":"2026072805113500700_bib12","doi-asserted-by":"crossref","first-page":"ruad042","DOI":"10.1093\/jcbiol\/ruad042","article-title":"Benchmarking global biodiversity of decapod crustaceans (Crustacea: Decapoda)","volume":"43","author":"De\u00a0Grave","year":"2023","journal-title":"J. Crust. Biol."},{"key":"2026072805113500700_bib13","first-page":"195","article-title":"Carideorum catalogus: the recent species of the dendrobranchiate, stenopodidean, procarididean and caridean shrimps (Crustacea: Decapoda)","volume":"85","author":"De\u00a0Grave","year":"2011","journal-title":"Zool. Med. Leiden."},{"key":"2026072805113500700_bib14","doi-asserted-by":"crossref","first-page":"e0120198","DOI":"10.1371\/journal.pone.0120198","article-title":"Dead shrimp blues: a global assessment of extinction risk in freshwater shrimps (Crustacea: Decapoda: Caridea)","volume":"10","author":"De\u00a0Grave","year":"2015","journal-title":"PLoS One"},{"key":"2026072805113500700_bib15","doi-asserted-by":"crossref","first-page":"IS24084","DOI":"10.1071\/IS24084","article-title":"Does morphological diversity in amphidromous Macrobrachium (Decapoda: Caridea: Palaemonidae) reflect species homology or habitat partitioning?","volume":"39","author":"de\u00a0Mazancourt","year":"2025","journal-title":"Invertebr. Syst."},{"issue":"6","key":"2026072805113500700_bib16","doi-asserted-by":"crossref","first-page":"1422","DOI":"10.1071\/IS18034","article-title":"Integrative taxonomy helps separate four species of freshwater shrimps commonly overlooked as Caridina longirostris (Crustacea: Decapoda: Atyidae) on Indo-West Pacific islands","volume":"32","author":"de\u00a0Mazancourt","year":"2018","journal-title":"Invert. Syst"},{"key":"2026072805113500700_bib17","doi-asserted-by":"crossref","first-page":"164","DOI":"10.1016\/j.ympev.2018.11.002","article-title":"The complex study of complexes: the first well-supported phylogeny of two species complexes within genus Caridina (Decapoda: Caridea: Atyidae) sheds light on evolution, biogeography, and habitat","volume":"131","author":"de\u00a0Mazancourt","year":"2019","journal-title":"Mol. Phylogenet. Evol."},{"issue":"2","key":"2026072805113500700_bib18","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1071\/IS16044","article-title":"When molecules and morphology work together: lines of evidence for the validity of Caridina buehleri Roux (Crustacea: Decapoda: Atyidae) and for C. gueryi Marquet, Keith & Kalfatak as its junior synonym","volume":"31","author":"de\u00a0Mazancourt","year":"2017","journal-title":"Invert. Syst."},{"key":"2026072805113500700_bib19","doi-asserted-by":"crossref","first-page":"ruae003","DOI":"10.1093\/jcbiol\/ruae003","article-title":"Amphidromous shrimps (Decapoda: Caridea): current knowledge and future research","volume":"44","author":"de\u00a0Mazancourt","year":"2024","journal-title":"J. Crustacean Biol."},{"issue":"4","key":"2026072805113500700_bib20","doi-asserted-by":"crossref","first-page":"592","DOI":"10.1111\/j.1365-2427.2005.01348.x","article-title":"The effects of shrimps on benthic material in a Brazilian island stream","volume":"50","author":"De\u00a0Souza","year":"2005","journal-title":"Freshw. Biol."},{"issue":"2","key":"2026072805113500700_bib21","doi-asserted-by":"crossref","first-page":"e1008322","DOI":"10.1371\/journal.pcbi.1008322","article-title":"Adaptive dating and fast proposals: revisiting the phylogenetic relaxed clock model","volume":"17","author":"Douglas","year":"2021","journal-title":"PLoS Comput. Biol."},{"key":"2026072805113500700_bib22","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1201\/9781420092592-c12","article-title":"Evolution and radiation of shrimp-like decapods: an overview","volume-title":"Decapod crustacean phylogenetics","author":"Fransen","year":"2009"},{"issue":"7511","key":"2026072805113500700_bib23","doi-asserted-by":"crossref","first-page":"574","DOI":"10.1038\/nature13597","article-title":"Antarctic glaciation caused ocean circulation changes at the Eocene\u2013Oligocene transition","volume":"511","author":"Goldner","year":"2014","journal-title":"Nature"},{"key":"2026072805113500700_bib24","doi-asserted-by":"crossref","first-page":"644","DOI":"10.1038\/nbt.1883","article-title":"Full-length transcriptome assembly from RNA-Seq data without a reference genome","volume":"29","author":"Grabherr","year":"2011","journal-title":"Nat. Biotechnol."},{"issue":"4","key":"2026072805113500700_bib25","doi-asserted-by":"crossref","first-page":"353","DOI":"10.1016\/S1367-9120(01)00069-4","article-title":"Cenozoic geological and plate tectonic evolution of SE Asia and the SW Pacific: computer-based reconstructions, model and animations","volume":"20","author":"Hall","year":"2002","journal-title":"J. Asian Earth Sci."},{"key":"2026072805113500700_bib26","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.tecto.2012.04.021","article-title":"Late Jurassic\u2013Cenozoic reconstructions of the Indonesian region and the Indian Ocean","volume":"570\u2013571","author":"Hall","year":"2012","journal-title":"Tectonophysics"},{"key":"2026072805113500700_bib27","doi-asserted-by":"crossref","first-page":"32","DOI":"10.1017\/CBO9780511735882.005","article-title":"Sundaland and Wallacea: geology, plate tectonics and palaeogeography","volume-title":"Biotic evolution and environmental change in Southeast Asia","author":"Hall","year":"2012"},{"key":"2026072805113500700_bib28","first-page":"571","article-title":"The complete larval development of Caridina japonica De Man (Decapoda, Caridea, Atyidae) reared in the laboratory","volume":"1","author":"Hayashi","year":"1984","journal-title":"Zoolog. Sci."},{"issue":"5","key":"2026072805113500700_bib29","doi-asserted-by":"crossref","first-page":"789","DOI":"10.1093\/bioinformatics\/btv651","article-title":"TESS: an R package for efficiently simulating phylogenetic trees and performing Bayesian inference of lineage diversification rates","volume":"32","author":"H\u00f6hna","year":"2016","journal-title":"Bioinformatics"},{"issue":"10","key":"2026072805113500700_bib30","doi-asserted-by":"crossref","first-page":"1164","DOI":"10.1130\/0016-7606(1995)107<1164:MLCCOT>2.3.CO;2","article-title":"Middle\u2013Late Cretaceous climate of the southern high latitudes: stable isotopic evidence for minimal equator-to-pole thermal gradients","volume":"107","author":"Huber","year":"1995","journal-title":"Geol. Soc. Am. Bull"},{"issue":"6806","key":"2026072805113500700_bib31","doi-asserted-by":"crossref","first-page":"887","DOI":"10.1038\/35038044","article-title":"Cooler winters as a possible cause of mass extinctions at the Eocene\/Oligocene boundary","volume":"407","author":"Ivany","year":"2000","journal-title":"Nature"},{"issue":"2","key":"2026072805113500700_bib32","doi-asserted-by":"crossref","first-page":"178","DOI":"10.1163\/156854094X00666","article-title":"Atyid shrimps of the genus Caridina H. Milne Edwards, 1837. Potential crustacean material for experimental biology","volume":"66","author":"Jalihal","year":"1994","journal-title":"Crustac"},{"issue":"4","key":"2026072805113500700_bib33","doi-asserted-by":"crossref","first-page":"772","DOI":"10.1093\/molbev\/mst010","article-title":"MAFFT multiple sequence alignment software version 7: improvements in performance and usability","volume":"30","author":"Katoh","year":"2013","journal-title":"Mol. Biol. Evol."},{"issue":"1\u20133","key":"2026072805113500700_bib34","doi-asserted-by":"crossref","first-page":"179","DOI":"10.1023\/B:HYDR.0000027346.06304.bc","article-title":"The salinity tolerance of eggs and hatchlings of selected aquatic macroinvertebrates in south-east Australia and South Africa","volume":"517","author":"Kefford","year":"2004","journal-title":"Hydrobiologia"},{"issue":"3","key":"2026072805113500700_bib35","doi-asserted-by":"crossref","first-page":"487","DOI":"10.1101\/gr.113985.110","article-title":"Adaptive seeds tame genomic sequence comparison","volume":"21","author":"Kie\u0142basa","year":"2011","journal-title":"Genome Res."},{"key":"2026072805113500700_bib36","doi-asserted-by":"crossref","first-page":"81","DOI":"10.3897\/zookeys.1009.54303","article-title":"Lake Poso\u2019s shrimp fauna revisited: the description of five new species of the genus Caridina (Crustacea, Decapoda, Atyidae) more than doubles the number of endemic lacustrine species","volume":"1009","author":"Klotz","year":"2021","journal-title":"ZK"},{"issue":"3","key":"2026072805113500700_bib37","doi-asserted-by":"crossref","first-page":"568","DOI":"10.1101\/gr.129684.111","article-title":"VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing","volume":"22","author":"Koboldt","year":"2012","journal-title":"Genome Res."},{"issue":"0","key":"2026072805113500700_bib38","doi-asserted-by":"crossref","first-page":"41","DOI":"10.18353\/crustacea.50.0_41","article-title":"Larval performance of three amphidromous shrimp species in the genus Caridina (Decapoda: Caridea: Atyidae) under different temperature and salinity conditions","volume":"50","author":"Kondo","year":"2021","journal-title":"Crust Res."},{"issue":"7","key":"2026072805113500700_bib39","doi-asserted-by":"crossref","first-page":"e2208851120","DOI":"10.1073\/pnas.2208851120","article-title":"Rapidly changing speciation and extinction rates can be inferred in spite of nonidentifiability","volume":"120","author":"Kopperud","year":"2023","journal-title":"Proc. Natl. Acad. Sci. USA."},{"issue":"6","key":"2026072805113500700_bib40","doi-asserted-by":"crossref","first-page":"789","DOI":"10.1093\/sysbio\/syt040","article-title":"Bayesian analysis of biogeography when the number of areas is large","volume":"62","author":"Landis","year":"2013","journal-title":"Syst. Biol."},{"key":"2026072805113500700_bib41","first-page":"Q06008","article-title":"Oceanwide imprint of large tectonic and oceanic events on seawater Nd isotope composition in the Indian Ocean from 90 to 40 Ma","volume":"13","author":"Le\u00a0Houedec","year":"2012","journal-title":"Geochem. Geophys"},{"issue":"16","key":"2026072805113500700_bib42","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The sequence alignment\/Map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"issue":"1","key":"2026072805113500700_bib43","doi-asserted-by":"crossref","first-page":"205","DOI":"10.1146\/annurev-ecolsys-102710-145001","article-title":"Biogeography of the Indo-Australian archipelago","volume":"42","author":"Lohman","year":"2011","journal-title":"Annu. Rev. Ecol. Evol. Syst."},{"issue":"1","key":"2026072805113500700_bib44","doi-asserted-by":"crossref","first-page":"489","DOI":"10.1146\/annurev-earth-040610-133431","article-title":"The Paleocene\u2013Eocene thermal maximum: a perturbation of carbon cycle, climate, and biosphere with implications for the future","volume":"39","author":"McInerney","year":"2011","journal-title":"Annu. Rev. Earth Planet. Sci."},{"key":"2026072805113500700_bib45","first-page":"84","article-title":"Food web structure and basal resource utilization along a tropical Island Stream Continuum, Puerto Rico","volume":"35","author":"March","year":"2003","journal-title":"Biotropica"},{"key":"2026072805113500700_bib46","doi-asserted-by":"crossref","first-page":"951","DOI":"10.1093\/sysbio\/syu056","article-title":"Model selection in historical biogeography reveals that founder-event speciation is a crucial process in Island Clades","volume":"63","author":"Matzke","year":"2014","journal-title":"Syst. Biol"},{"key":"2026072805113500700_bib47","doi-asserted-by":"crossref","first-page":"1293","DOI":"10.1126\/science.1116412","article-title":"The Phanerozoic record of global sea-level change","volume":"310","author":"Miller","year":"2005","journal-title":"Science"},{"key":"2026072805113500700_bib48","doi-asserted-by":"crossref","first-page":"32","DOI":"10.5670\/oceanog.2020.224","article-title":"Ancient sea level as key to the future","volume":"33","author":"Miller","year":"2020","journal-title":"Oceanography"},{"key":"2026072805113500700_bib49","first-page":"67","article-title":"Roles of salinity on survival rate, metamorphosis period, and rate of acclimatization of dwarf blue shrimp, Caridina c.f. babaulti (Bouvier, 1918)","volume":"49","author":"Nensri","year":"2025","journal-title":"J. Fish. Environ"},{"key":"2026072805113500700_bib50","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1093\/molbev\/msu300","article-title":"IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies","volume":"32","author":"Nguyen","year":"2015","journal-title":"Mol. Biol. Evol."},{"key":"2026072805113500700_bib51","first-page":"S185","article-title":"Biogeography of the northern Peri-Tethys from the Late Eocene to the Early Miocene: part 2. Early Oligocene","volume":"36","author":"Popov","year":"2002","journal-title":"Paleontol. J."},{"issue":"6","key":"2026072805113500700_bib52","doi-asserted-by":"crossref","first-page":"890","DOI":"10.1093\/oxfordjournals.molbev.a026369","article-title":"A fast algorithm for joint reconstruction of ancestral amino acid sequences","volume":"17","author":"Pupko","year":"2000","journal-title":"Mol. Biol. Evol."},{"issue":"4","key":"2026072805113500700_bib53","doi-asserted-by":"crossref","first-page":"1002","DOI":"10.1093\/gbe\/evz045","article-title":"The molecular basis of freshwater adaptation in prawns: insights from comparative transcriptomics of three Macrobrachium species","volume":"11","author":"Rahi","year":"2019","journal-title":"Genome Biol. Evol."},{"key":"2026072805113500700_bib54","doi-asserted-by":"crossref","first-page":"e16505","DOI":"10.7717\/peerj.16505","article-title":"phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things)","volume":"12","author":"Revell","year":"2024","journal-title":"PeerJ"},{"key":"2026072805113500700_bib55","doi-asserted-by":"crossref","first-page":"1","DOI":"10.11646\/zootaxa.1995.1.1","article-title":"African Caridina (Crustacea: Decapoda: Caridea: Atyidae): redescriptions of C. africana Kingsley, 1882, C. togoensis Hilgendorf, 1893, C. natalensis Bouvier, 1925 and C. roubaudi Bouvier, 1925 with descriptions of 14 new species","volume":"1995","author":"Richard","year":"2009","journal-title":"Zootaxa"},{"key":"2026072805113500700_bib56","first-page":"1006","article-title":"K-Pg extinction patterns in marine and freshwater environments: the impact winter model","volume":"118","author":"Robertson","year":"2013","journal-title":"JGR: Biogeosci"},{"issue":"7","key":"2026072805113500700_bib57","doi-asserted-by":"crossref","first-page":"evab103","DOI":"10.1093\/gbe\/evab103","article-title":"Molecular evolution of ecological specialisation: genomic Insights from the diversification of murine rodents","volume":"13","author":"Roycroft","year":"2021","journal-title":"Genome Biol. Evol."},{"key":"2026072805113500700_bib58","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1016\/j.jsames.2018.12.001","article-title":"Redescription and illustration of caridean shrimp from the Cretaceous (Aptian) of Brazil","volume":"90","author":"Schweitzer","year":"2019","journal-title":"J. South Am. Earth Sci."},{"key":"2026072805113500700_bib59","first-page":"603","article-title":"Atyidae and palaemonidae, freshwater shrimps","volume-title":"The natural history of madagascar","author":"Short","year":"2007"},{"issue":"1","key":"2026072805113500700_bib60","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1016\/j.jafrearsci.2005.11.008","article-title":"A proposed drainage evolution model for Central Africa\u2014Did the Congo flow east?","volume":"44","author":"Stankiewicz","year":"2006","journal-title":"J. Afr. Earth Sci."},{"issue":"3","key":"2026072805113500700_bib61","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1046\/j.1467-2960.2001.00052.x","article-title":"The freshwater fish of Neogene Africa (Miocene\u2013Pleistocene): systematics and biogeography","volume":"2","author":"Stewart","year":"2001","journal-title":"Fish Fish"},{"issue":"1","key":"2026072805113500700_bib62","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1111\/j.1469-185X.2012.00241.x","article-title":"Abbreviation of larval development and extension of brood care as key features of the evolution of freshwater Decapoda","volume":"88","author":"Vogt","year":"2013","journal-title":"Biol. Rev."},{"issue":"11","key":"2026072805113500700_bib63","doi-asserted-by":"crossref","first-page":"3287","DOI":"10.1111\/j.1558-5646.2010.01043.x","article-title":"Adaptive radiation and ecological diversification of Sulawesi\u2019s ancient lake shrimps","volume":"64","author":"Von\u00a0Rintelen","year":"2010","journal-title":"Evolution"},{"issue":"1","key":"2026072805113500700_bib64","doi-asserted-by":"crossref","first-page":"82","DOI":"10.1016\/j.ympev.2011.12.015","article-title":"Drawn to the dark side: a molecular phylogeny of freshwater shrimps (Crustacea: Decapoda: Caridea: Atyidae) reveals frequent cave invasions and challenges current taxonomic hypotheses","volume":"63","author":"von\u00a0Rintelen","year":"2012","journal-title":"Mol. Phylogenet. Evol."},{"key":"2026072805113500700_bib65","doi-asserted-by":"crossref","first-page":"543","DOI":"10.1130\/G31022.1","article-title":"Evidence for middle Miocene uplift of the East African Plateau","volume":"38","author":"Wichura","year":"2010","journal-title":"Geology"},{"key":"2026072805113500700_bib66","doi-asserted-by":"crossref","first-page":"46","DOI":"10.1016\/j.ympev.2015.03.008","article-title":"RASP (Reconstruct Ancestral State in Phylogenies): a tool for historical biogeography","volume":"87","author":"Yu","year":"2015","journal-title":"Mol. Phylogenet. Evol."},{"issue":"5517","key":"2026072805113500700_bib67","doi-asserted-by":"crossref","first-page":"686","DOI":"10.1126\/science.1059412","article-title":"Trends, rhythms, and aberrations in global climate 65 Ma to present","volume":"292","author":"Zachos","year":"2001","journal-title":"Science"},{"issue":"1","key":"2026072805113500700_bib68","doi-asserted-by":"crossref","first-page":"54","DOI":"10.1186\/s12862-020-01609-4","article-title":"Improving the performance of Bayesian phylogenetic inference under relaxed clock models","volume":"20","author":"Zhang","year":"2020","journal-title":"BMC Evol. Biol."},{"issue":"1","key":"2026072805113500700_bib69","doi-asserted-by":"crossref","first-page":"356","DOI":"10.1038\/s41467-018-08197-4","article-title":"Penaeid shrimp genome provides insights into benthic adaptation and frequent molting","volume":"10","author":"Zhang","year":"2019","journal-title":"Nat. Commun."}],"container-title":["Systematic Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/sysbio\/advance-article-pdf\/doi\/10.1093\/sysbio\/syag047\/68741176\/syag047.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/sysbio\/advance-article-pdf\/doi\/10.1093\/sysbio\/syag047\/68741176\/syag047.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,7,28]],"date-time":"2026-07-28T09:11:50Z","timestamp":1785229910000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/sysbio\/advance-article\/doi\/10.1093\/sysbio\/syag047\/8729358"}},"subtitle":[],"editor":[{"given":"Nathan","family":"Whelan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2026,7,9]]},"references-count":69,"URL":"https:\/\/doi.org\/10.1093\/sysbio\/syag047","relation":{},"ISSN":["1063-5157","1076-836X"],"issn-type":[{"value":"1063-5157","type":"print"},{"value":"1076-836X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,7,9]]},"article-number":"syag047"}}