Biodiversity Literature Repository
Published February 1, 2022 | Version v1
Journal article Restricted

Evolutionary history of Sundaland shrews (Eulipotyphla: Soricidae: Crocidura) with a focus on Borneo

Creators

Description

Hinckley, Arlo, Camacho-Sanchez, Miguel, Ruedi, Manuel, Hawkins, Melissa T R, Mullon, Madeleine, Cornellas, Anna, Tuh Yit Yuh, Fred, Leonard, Jennifer A (2022): Evolutionary history of Sundaland shrews (Eulipotyphla: Soricidae: Crocidura) with a focus on Borneo. Zoological Journal of the Linnean Society 194 (2): 478-501, DOI: 10.1093/zoolinnean/zlab045, URL: https://academic.oup.com/zoolinnean/article/194/2/478/6327494

Files

Restricted

The record is publicly accessible, but files are restricted to users with access.

Linked records

Additional details

Identifiers

LSID
urn:lsid:plazi.org:pub:3F76FF9671492E3DFFACFFEA5567FF9B

Has part
Figure: 10.5281/zenodo.6352217 (DOI)
Figure: 10.5281/zenodo.6352219 (DOI)
Figure: 10.5281/zenodo.6352221 (DOI)
Figure: 10.5281/zenodo.6352225 (DOI)
Figure: 10.5281/zenodo.6352227 (DOI)
Figure: 10.5281/zenodo.6352229 (DOI)

References

  • Abd Wahab MF, Pathmanathan D, Motokawa M, Khan FAA, Omar H. 2020. Taxonomic assessment of the Malayan water shrew Chimarrogale hantu Harrison, 1958 and reclassification to the genus Crossogale. Mammalian Biology 100: 399-409.
  • Abegg C. 2002. Macaque evolution and dispersal in insular south-east Asia. Biological Journal of the Linnean Society 75: 555-576.
  • Abramov AV, Jenkins PD, Rozhnov VV, Kalinin AA. 2008. Description of a new species of Crocidura (Soricomorpha: Soricidae) from the island of Phu Quoc, Vietnam. Mammalia 72: 269-272.
  • Abramov AV, Bannikova AA, Lebedev VS, Rozhnov VV. 2017. Revision of Chimarrogale (Lipotyphla: Soricidae) from Vietnam with comments on taxonomy and biogeography of Asiatic water shrews. Zootaxa 4232: 216-230.
  • Achmadi AS, Esselstyn JA, Rowe KC, Maryanto I, Abdullah MT. 2013. Phylogeny, diversity, and biogeography of Southeast Asian spiny rats (Maxomys). Journal of Mammalogy 94: 1412-1423.
  • Alcover JA. 1980. Note on the origin of the present mammalian fauna from the Balearic and Pityusic islands. Miscellania Zoologica 6: 141-149.
  • Alroy J. 2019. Small mammals have big tails in the tropics. Global Ecology and Biogeography 28: 1042-1050.
  • Andrews S. 2010. FastQC: a quality control tool for high throughput sequence data. Available at: http://www. bioinformatics.babraham.ac.uk/projects/fastqc. Accessed April 2020.
  • Arifin U, Iskandar DT, Bickford DP, Brown RM, Meier R, Kutty SN. 2011. Phylogenetic relationships within the genus Staurois (Anura, Ranidae) based on 16S rRNA sequences. Zootaxa 2744: 39-52.
  • Bannikova AA, Abramov AV, Borisenko AV, Lebedev VS, Rozhnov VV. 2011. Mitochondrial diversity of the whitetoothed shrews (Mammalia, Eulipotyphla, Crocidura) in Vietnam. Zootaxa 2812: 1-20.
  • Bolger AM, Lohse M, Usadel B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30: 2114-2120.
  • Borowiec ML. 2016. AMAS: a fast tool for alignment manipulation and computing of summary statistics. PeerJ 4: e1660.
  • Bouckaert RR, Drummond AJ. 2017. bModelTest: Bayesian phylogenetic site model averaging and model comparison. BMC Evolutionary Biology 17: 42.
  • Bouckaert RR, Heled J, Kuhnert D, Vaughan T, Wu CH, Xie D, Suchard MA, Rambaut A, Drummond AJ. 2014. BEAST 2: a software platform for Bayesian evolutionary analysis. PLoS Computational Biology 10: e1003537.
  • Bover P, Parpal L, Pons J, Alcover JA. 2012. Evidence for a recent introduction of Crocidura russula (Mammalia, Eulipotyphla, Soricomorpha) in Mallorca (Balearic Islands, western Mediterranean Sea). Mammalia 76: 113-116.
  • Bover P, Mitchell KJ, Llamas B, Rofes J, Thomson VA, Cuenca-Bescos G, Alcover JA, Cooper A, Pons J. 2018. Molecular phylogenetics supports the origin of an endemic Balearic shrew lineage (Nesiotites) coincident with the Messinian Salinity Crisis. Molecular Phylogenetics and Evolution 125: 188-195.
  • Boyce AJ, Shakya S, Sheldon FH, Moyle RG, Martin TE. 2019. Biotic interactions are the dominant drivers of phylogenetic and functional structure in bird communities along a tropical elevational gradient. The Auk 20: 1-14.
  • Bromham L, Duchene S, Hua X, Ritchie AM, Duchene DA, Ho SY. 2018. Bayesian molecular dating: opening up the black box. Biological Reviews 93: 1165-1191.
  • Brown RM,Siler CD. 2014. Spotted stream frog diversification at the Australasian faunal zone interface, mainland versus island comparisons, and a test of the Philippine 'dualumbilicus' hypothesis. Journal of Biogeography 41: 182-195.
  • Brown RM, Weghorst JA, Olson KV, Duya MR, Barley AJ, Duya MV, Shekelle M, Neri-Arboleda I, Esselstyn JA, Dominy NJ, Ong PS. 2014. Conservation genetics of the Philippine tarsier: cryptic genetic variation restructures conservation priorities for an island archipelago primate. PLoS One 9: e104340.
  • Burgin C, He K, Haslauer R, Sheftel B, Jenkins P, Ruedi M, Hintsche S, Motokawa M, Hinckley A, Hutterer R. 2018a. Family Soricidae (Shrews). In: Wilson, DE, Mittermeier RA, eds. Handbook of the mammals of the world - Vol. 8: insectivores, sloths and colugos. Barcelona: Lynx Edicions, 332-551.
  • Burgin CJ, Colella JP, Kahn PL, Upham NS. 2018b. How many species of mammals are there? Journal of Mammalogy 99: 1-14.
  • Bushnell B. 2014. BBTools software package. Available at: http://sourceforge. net/projects/bbmap. Accessed April 2020.
  • Camacho-Sanchez M. 2017. Evolution in Sundaland: insights from comparative phylogeography of Rattus and Sundamys rats. Unpublished D. Phil. Thesis, University Pablo de Olavide.
  • Camacho-Sanchez M, Leonard JA. 2020. Mitogenomes reveal multiple colonization of mountains by Rattus in Sundaland. Journal of Heredity 111: 392-404.
  • Camacho-Sanchez M, Leonard JA, Fitriana Y, Tilak MK, Fabre PH. 2017. The generic status of Rattus annandalei (Bonhote, 1903)(Rodentia, Murinae) and its evolutionary implications. Journal of Mammalogy 98: 1340-1355.
  • Camacho-Sanchez M, Quintanilla I, Hawkins MT, Tuh FY, Wells K, Maldonado JE, Leonard JA. 2018. Interglacial refugia on tropical mountains: novel insights from the summit rat (Rattus baluensis), a Borneo mountain endemic. Diversity and Distributions 24: 1252-1266.
  • Cannon CH, Morley RJ, Bush ABG. 2009. The current refugial rainforests of Sundaland are unrepresentative of their biogeographic past and highly vulnerable to disturbance. Proceedings of the National Academy of Sciences of the USA 106: 11188-11193.
  • Capella-Gutierrez S, Silla-Martinez JM, Gabaldon T. 2009. TrimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25: 1972-1973.
  • Caroe C, Gopalakrishnan S, Vinner L, Mak SS , Sinding MHS, Samaniego JA, Wales N, Sicheritz- Ponten T, Gilbert MTP. 2018. Single-tube library preparation for degraded DNA. Methods in Ecology and Evolution 9: 410-419.
  • Carstens BC, Knowles LL. 2007. Estimating species phylogeny from gene-tree probabilities despite incomplete lineage sorting: an example from Melanoplus grasshoppers. Systematic Biology 56: 400-411.
  • Cheke AS. 1987. An ecological history of the Mascarene Islands, with particular reference to extinctions and introductions of land vertebrates. In: Diamond AS (ed.). Studies of Mascarene birds. Cambridge: Cambridge University Press, 5-89.
  • Chen S, Qing J, Liu Z, Liu Y, Tang M, Murphy RW, Pu Y, Wang X, Tang K, Guo K, Jiang X. 2020. Multilocus phylogeny and cryptic diversity of white-toothed shrews (Mammalia, Eulipotyphla, Crocidura) in China. BMC Evolutionary Biology 20: 1-14.
  • Cros E, Chattopadhyay B, Garg KM, Ng NS, Tomassi S, Benedick S, Edwards DP, Rheindt FE. 2020. Quaternary land bridges have not been universal conduits of gene flow. Molecular Ecology 29: 2692-2706.
  • Davison GWH. 1984. New records of P. Malaysian and Thai shrews. Malayan Nature Journal 36: 211-215.
  • De Bruyn M, Stelbrink B, Morley RJ, Hall R, Carvalho GR, Cannon CH, van den Bergh G, Meijaard E, Metcalfe I, Boitani L, Maiorano L. 2014. Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity. Systematic Biology 63: 879-901.
  • Demos TC, Achmadi AS, Giarla TC, Handika H, Rowe KC, Esselstyn JA 2016. Local endemism and withinisland diversification of shrews illustrate the importance of speciation in building Sundaland mammal diversity. Molecular Ecology 25: 5158-5173.
  • Demos TC, Achmadi AS, Handika H, Rowe KC, Esselstyn JA. 2017. A new species of shrew (Soricomorpha: Crocidura) from Java, Indonesia: possible character displacement despite interspecific gene flow. Journal of Mammalogy 98: 183-193.
  • Den Tex RJ, Leonard JA. 2013. A molecular phylogeny of Asian barbets: speciation and extinction in the tropics. Molecular Phylogenetics and Evolution 68: 1-13.
  • Den Tex RJ, Thorington RW, Maldonado JE, Leonard JA. 2010. Speciation dynamics in the SE Asian tropics: putting a time perspective on the phylogeny and biogeography of Sundaland tree squirrels, Sundasciurus. Molecular Phylogenetics and Evolution 55: 711-720.
  • Despres L. 2019. One, two or more species? Mitonuclear discordance and species delimitation. Molecular Ecology 28: 3845-3847.
  • Driller C, Merker S, Perwitasari-Farajallah D, Sinaga W, Anggraeni N, Zischler H. 2015. Stop and go-waves of tarsier dispersal mirror the genesis of Sulawesi island. PLoS One 10: e0141212.
  • Duchene, S , Archer FI, Vilstrup J, Caballero S , Morin PA. 2011. Mitogenome phylogenetics: the impact of using single regions and partitioning schemes on topology, substitution rate and divergence time estimation. PLoS One 6: e27138.
  • Edwards SV, Beerli P. 2000. Perspective: gene divergence, population divergence, and the variance in coalescence time in phylogeographic studies. Evolution 54: 1839-1854
  • Esselstyn JA, Achmadi AS. 2014. A new species of shrew (Soricomorpha: Crocidura) from West Java, Indonesia. Journal of Mammalogy 95: 216-224.
  • Esselstyn JA, Goodman SM. 2010. New species of shrew (Soricidae: Crocidura) from Sibuyan Island, Philippines. Journal of Mammalogy 91: 1467-1472.
  • Esselstyn JA, Oliveros CH. 2010. Colonization of the Philippines fromTaiwan:a multi-locus test of the biogeographic and phylogenetic relationships of isolated populations of shrews. Journal of Biogeography 37: 1504-1514.
  • Esselstyn JA, Oliveros CH, Moyle RG, Peterson AT, McGuire JA, Brown RM. 2010. Integrating phylogenetic and taxonomic evidence illuminates complex biogeographic patterns along Huxley's modification of Wallace's Line. Journal of Biogeography 37: 2054-2066.
  • Esselstyn JA, Achmadi AS, Siler CD, Evans BJ. 2013. Carving out turf in a biodiversity hotspot: multiple, previously unrecognized shrew species co-occur on Java Island, Indonesia. Molecular Ecology 22: 4972-4987.
  • Esselstyn JA, Achmadi AS, Handika H, Giarla TC, Rowe KC. 2019. A new climbing shrew from Sulawesi highlights the tangled taxonomy of an endemic radiation. Journal of Mammalogy 100: 1713-1725.
  • Ewels P, Magnusson M, Lundin S, Kaller M. 2016. MultiQC: summarize analysis results for multiple tools and samples in a single report. Bioinformatics 32: 3047-3048.
  • Flot JF. 2010. SeqPHASE: a web tool for interconverting PHASE input/output files and FASTA sequence alignments. Molecular Ecology Resources 10: 162-166.
  • Gargan LM, Cornette R, Yearsley JM, Montgomery WI, Pauperio J, Alves PC, Butler F, Pascal M, Tresset A, Herrel A, Lusby J. 2016. Molecular and morphological insights into the origin of the invasive greater white-toothed shrew (Crocidura russula) in Ireland. Biological Invasions 18: 857-871.
  • Garrick RC, Sunnucks P, Dyer RJ. 2010. Nuclear gene phylogeography using PHASE: dealing with unresolved genotypes, lost alleles, and systematic bias in parameter estimation. BMC Evolutionary Biology 10: 118.
  • Gawin DF, Rahman MA, Ramji MFS, Smith BT, Lim HC, Moyle RG, Sheldon FH. 2014. Patterns of avian diversification in Borneo: the case of the endemic mountain black-eye (Chlorocharis emiliae). The Auk: Ornithological Advances 131: 86-99.
  • Giarla TC, Esselstyn JA. 2015. The challenges of resolving a rapid, recent radiation: empirical and simulated phylogenomics of Philippine shrews. Systematic Biology 64: 727-740.
  • Groves, C. 2001. Mammals in Sulawesi: where did they come from and when, and what happened to them when they got there. In: Metcalfe I, Smith JM, Morwood M, Davidson I. Faunal and floral migrations and evolution in SE Asia- Australia. Boca Raton: CRC press, 333-342.
  • Hall R. 2013. The palaeogeography of Sundaland and Wallacea since the Late Jurassic. Journal of Limnology 72: 1-17.
  • Hawkins MT, Leonard JA, Helgen KM, McDonough MM, Rockwood LL, Maldonado JE. 2016a. Evolutionary history of endemic Sulawesi squirrels constructed from UCEs and mitogenomes sequenced from museum specimens. BMC Evolutionary Biology 16: 1-16.
  • Hawkins MT, Helgen KM, Maldonado JE, Rockwood LL, Tsuchiya MT, Leonard JA . 2016 b. Phylogeny, biogeography and systematic revision of plain long-nosed squirrels (genus Dremomys, Nannosciurinae). Molecular Phylogenetics and Evolution 94: 752-764.
  • Hayssen V. 2008. Patterns of body and tail length and body mass in Sciuridae. Journal of Mammalogy 89: 852-873.
  • Heaney LR. 1984. Mammalian species richness on islands on the Sunda Shelf, Southeast Asia. Oecologia 61: 11-17.
  • Heaney LR. 1991. A synopsis of climatic and vegetational change in Southeast Asia. In Tropical Forests and Climate 19: 53-61.
  • Heaney LR, Kyriazis CC, Balete DS, Steppan SJ, Rickart EA. 2018. How small an island? Speciation by endemic mammals (Apomys, Muridae) on an oceanic Philippine island. Journal of Biogeography 45: 1675-1687.
  • Hinckley A. 2021. Habitat driven diversification in small mammals of tropical east Asia. University of Seville.
  • Hinckley A, Hawkins M, Achmadi A, Maldonado JE, Leonard JA. 2020. Ancient divergence driven by geographic isolation and ecological adaptation in forest dependent Sundaland tree squirrels. Frontiers in Ecology and Evolution 8: 208.
  • Hinckley A, Sanchez-Donoso I, Comas M, Camacho- Sanchez M, Hasan NH, Leonard JA. 2021. Challenging ecogeographical rules: phenotypic variation in the mountain treeshrew (Tupaia montana) along tropical elevational gradients. In review.
  • Ho SY, Phillips MJ, Cooper A, Drummond AJ. 2005. Time dependency of molecular rate estimates and systematic overestimation of recent divergence times. Molecular Biology and Evolution 22: 1561-1568.
  • Housley DJ, Zalewski ZA, Beckett SE, Venta PJ. 2006. Design factors that influence PCR amplification success of cross-species primers among 1147 mammalian primer pairs. BMC Genomics 7: 253.
  • Husson L , Boucher FC, Sarr AC, Sepulchre P , Cahyarini SY. 2020. Evidence of Sundaland's subsidence requires revisiting its biogeography. Journal of Biogeography 47: 843-853.
  • Hutterer R. 1985. Anatomical adaptations of shrews. Mammal Review 15: 43-55.
  • Hutterer R. 2005. Order Soricomorpha. In: Wilson DE, Reeder DM, eds. Mammal species of the world: a taxonomic and geographic reference, Vol. 1. Baltimore: John Hopkins University Press, 220-311.
  • Hutterer R, Balete DS , Giarla TC, Heaney LR , Esselstyn JA. 2018. A new genus and species of shrew (Mammalia: Soricidae) from Palawan Island, Philippines. Journal of Mammalogy 99: 518-536.
  • Igea J, Aymerich P, Bannikova AA, Gosalbez J, Castresana J. 2015. Multilocus species trees and species delimitation in a temporal context: application to the water shrews of the genus Neomys. BMC Evolutionary Biology 15: 209.
  • Jacquet F, Denys C, Verheyen E, Bryja J, Hutterer R, Peterhans JCK , Stanley WT , Goodman SM , Couloux A, Colyn M, Nicolas V. 2015. Phylogeography and evolutionary history of the Crocidura olivieri complex (Mammalia,Soricomorpha): from a forest origin to broad ecological expansion across Africa. BMC Evolutionary Biology 15: 71.
  • Jenkins PD. 1976. Variation in Eurasian shrews of the genus Crocidura (Insectivora: Soricidae). Bulletin of the British Museum of Natural History (Zoology) 30: 271-309.
  • Jenkins PD. 1982. A discussion of the Malayan and Indonesian shrews of the genus Crocidura (Insectivora: Soricidae). Zoologische Mededelingen Leiden 56: 267-279.
  • Jenkins PD, Abramov AV, Rozhnov VV, Makarova OV. 2007. Description of two new species of white-toothed shrews belonging to the genus Crocidura (Soricomorpha: Soricidae) from the Ngoc Linh Mountain, Vietnam. Zootaxa 1589: 57-68.
  • Jenkins PD, Lunde DP, Moncrieff CB. 2009. Chapter 10. Descriptions of new species of Crocidura (Soricomorpha: Soricidae) from mainland Southeast Asia, with synopses of previously described species and remarks on biogeography. In: Voss RS, Carleton MC eds. Systematic mammalogy: contributions in honour of Guy G. Musser. Bulletin of the American Museum of Natural History 331: 356-405.
  • Jenkins PD, Abramov AV, Bannikova AA, Rozhnov VV. 2013. Bones and genes: resolution problems in three Vietnamese species of Crocidura (Mammalia, Soricomorpha, Soricidae) and the description of an additional new species. ZooKeys 313: 61.
  • Jiang Z, Priat C, Galibert F. 1998. Traced orthologous amplified sequence tags (TOASTs) and mammalian comparative maps. Mammalian Genome 9: 577-587.
  • Kalyaanamoorthy S, Minh BQ, Wong TK, von Haeseler A, Jermiin LS. 2017. ModelFinder: fast model selection for accurate phylogenetic estimates. Nature Methods 14: 587.
  • Karin BR, Das I, Jackman TR, Bauer AM. 2017. Ancient divergence time estimates in Eutropis rugifera support the existence of Pleistocene barriers on the exposed Sunda Shelf. PeerJ 5: e3762.
  • Kassambara A, Mundt F. 2017. Package 'Factoextra'. Extract and visualize the results of multivariate data analyses, 76. Available at: https://cran.r-project.org/web/packages/ factoextra/factoextra.pdf (accessed January, 2020).
  • Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Molecular Biology and Evolution 30: 772-780.
  • Kingsley EP, Kozak KM , Pfeifer SP , Yang DS , Hoekstra HE. 2017. The ultimate and proximate mechanisms driving the evolution of long tails in forest deer mice. Evolution 71: 261-273.
  • Kumar S, Stecher G, Tamura, K. 2016. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Molecular Biology and Evolution 33: 1870-1874.
  • Leonard JA, Den Tex RJ, Hawkins MT, Munoz-Fuentes V, Thorington R, Maldonado JE. 2015. Phylogeography of vertebrates on the Sunda Shelf: a multi-species comparison. Journal of Biogeography 42: 871-879.
  • Li H. 2013. Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM. arXiv preprint arXiv:1303.3997.
  • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R. 2009. The sequence alignment/map format and SAMtools. Bioinformatics 25: 2078-2079.
  • Lim HC, Shakya SB, Harvey MG, Moyle RG, Fleischer RC, Braun MJ, Sheldon FH. 2020. Opening the door to greater phylogeographic inference in Southeast Asia: Comparative genomic study of five codistributed rainforest bird species using target capture and historical DNA. Ecology and Evolution 10: 3222-3247.
  • Martin RD. 1968. Reproduction and ontogeny in treeshrews (Tupaia belangeri), with reference to their general behaviour and taxonomic relationships. Zeitschrift fur Tierpsychologie 25: 409-495.
  • Martins RF, Schmidt A, Lenz D, Wilting A, Fickel J. 2019. Human-mediated introduction of introgressed deer across Wallace's line. Ecology and Evolution 8: 1465-1479.
  • Mason VC, Li G, Minx P, Schmitz J, Churakov G, Doronina L, Melin AD, Dominy NJ, Lim NT , Springer MS, Wilson RK. 2016. Genomic analysis reveals hidden biodiversity within colugos, the sister group to primates. Science Advances 2: e1600633.
  • Mason VC, Helgen KM, Murphy WJ. 2019. Comparative phylogeography of forest-dependent mammals reveals Paleoforest corridors throughout Sundaland. Journal of Heredity 110: 158-172.
  • Mason NA, Fletcher NK, Gill BA, Funk WC, Zamudio KR. 2020. Coalescent-based species delimitation is sensitive to geographic sampling and isolation by distance. Systematics and Biodiversity 18: 269-280.
  • McCormack JE, Heled J, Delaney KS, Peterson AT, Knowles LL. 2011. Calibrating divergence times on species trees versus gene trees: implications for speciation history of Aphelocoma jays. Evolution 65: 184-202.
  • Medway LGH. 1977. Mammals of Borneo: field keys and an annotated checklist. Monographs of the Malaysian Branch of the Royal Asiatic Society 7: 1-172.
  • Mein P, Pickford M. 2006. Late Miocene micromammals from the Lukeino Formation (6.1 to 5.8 Ma), Kenya. Bulletin Mensuel de la Societe Linneenne de Lyon 75: 183-223.
  • Merckx VS, Hendriks KP, Beentjes KK, Mennes CB, Becking LE, Peijnenburg KT, Afendy A, Arumugam N, De Boer H, Biun A, Buang MM. 2015. Evolution of endemism on a young tropical mountain. Nature 524: 347-350.
  • Miller GS, Hollister N. 1921. Twenty new mammals collected by HC Raven in Celebes. Proceedings of the Biological Society of Washington 34: 93-104.
  • Moen D, Morlon H. 2014. Why does diversification slow down?. Trends in Ecology & Evolution 29: 190-197.
  • Murphy WJ, Eizirik E, Johnson WE, Zhang YP , Ryder OA, O'Brien SJ. 2001. Molecular phylogenetics and the origins of placental mammals. Placental mammal diversification and the Cretaceous-Tertiary boundary. Nature 409: 614-618.
  • Musser GG. 1986. Sundaic Rattus: definitions of Rattus baluensis and Rattus korinchi. American Museum Novitates 2862: 1-24.
  • Musser GG, Durden LA, Holden ME, Light JE. 2010. Systematic review of endemic Sulawesi squirrels (Rodentia, Sciuridae), with descriptions of new species of associated sucking lice (Insecta, Anoplura), and phylogenetic and zoogeographic assessments of sciurid lice. Bulletin of the American Museum of Natural History 2010: 1-260.
  • Nations JA, Heaney LR, Demos TC, Achmadi AS, Rowe KC, Esselstyn JA. 2019. A simple skeletal measurement effectively predicts climbing behaviour in a diverse clade of small mammals. Biological Journal of the Linnean Society 128: 323-336.
  • Nguyen LT, Schmidt HA, Von Haeseler A, Minh BQ. 2015. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Molecular Biology and Evolution 32: 268-274.
  • O'Connell KA,Smart U,Smith EN,HamidyA,Kurniawan N, Fujita MK. 2018. Within-island diversification underlies parachuting frog (Rhacophorus) species accumulation on the Sunda Shelf. Journal of Biogeography 45: 929-940.
  • Ohtani M, Kondo T, Tani N, Ueno S, Lee LS, Ng KK, Muhammad N, Finkeldey R, Na'iem M, Indrioko S, KamiyaK.2013.NuclearandchloroplastDNAphylogeography reveals Pleistocene divergence and subsequent secondary contact of two genetic lineages of the tropical rainforest tree species Shorea leprosula (Dipterocarpaceae) in South-East Asia. Molecular Ecology 22: 2264-2279.
  • Omar H, Hashim R, Bhassu S, Ruedi M. 2013. Morphological and genetic relationships of the Crocidura monticola species complex (Soricidae: Crocidurinae) in Sundaland. Mammalian Biology 78: 446-454.
  • Padial JM, Miralles A, De la Riva I, Vences M. 2010. The integrative future of taxonomy. Frontiers in Zoology 7: 1-14.
  • Paradis E, Schliep K. 2019. Ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R. Bioinformatics 35: 526-528.
  • Parham JF, Donoghue PC, Bell CJ, Calway TD, Head JJ, Holroyd PA, Inoue JG, Irmis RB, Joyce WG, Ksepka DT, Patane JS. 2012. Best practices for justifying fossil calibrations. Systematic Biology 61: 346-359.
  • Parker LD, Hawkins MT , Camacho-Sanchez M, Campana MG, West-Roberts JA, Wilbert TR, Lim HC, Rockwood LL, Leonard JA, Maldonado JE. 2020. Little genetic structure in a Bornean endemic small mammal across a steep ecological gradient. Molecular Ecology 29: 4074-4090.
  • Patterson BD. 2002. On the continuing need for scientific collecting of mammals. Mastozoologia Neotropical 9: 253-262.
  • Pinya S, Bover P, Jurado-Rivera JA, Trenado S, Parpal L, Ferriz I, Talavera A, Hinckley A, Pons J, Lopez- Fuster MJ, Alcover JA. 2018. Recent island colonization by an introduced shrew in the western Mediterranean. Hystrix 29: 232-235.
  • R Core Team. 2018. R: a language and environment for statistical computing. Vienna: R Core Team.
  • Rambaut A, Drummond AJ, Xie D, Baele G, Suchard MA. 2018. Posterior summarization in Bayesian phylogenetics using Tracer 1.7. Systematic Biology 67: 901.
  • Reumer JWF. 1989. Speciation and evolution in the Soricidae (Mammalia: Insectivora) in relation with the paleoclimate. Revue Suisse de Zoologie 96: 81-90.
  • Riddle BR, Ladle RJ, Lourie SA, Whittaker RJ. 2011. Basic biogeography: estimating biodiversity and mapping nature. In: Ladle RJ, Whittaker RJ, ed. Conservation biogeography. Oxford: Wiley, 45-92.
  • Roberts TE, Lanier HC, Sargis EJ, Olson LE. 2011. Molecular phylogeny of treeshrews (Mammalia: Scandentia) and the timescale of diversification in Southeast Asia. Molecular Phylogenetics and Evolution 60: 358-372.
  • Robinson HC, Kloss CB. 1918. Results of an expedition to Korinchi Peak, Sumatra, 1. Mammals. Journal of the Federated Malay States Museum 8: 1-80.
  • Roos C, Helgen KM, Portela-Miguez R, Thant NML, Lwin N, Lin AK, Lin A, Yi KM, Soe P, Hein ZM, Myint MNN, Ahmed T, Chetry D, Urh M, Veatch EG, Duncan N, Kamminga P, Chua MAH, Yao L , Matauschek C, Meyer D, Liu ZJ, Li M, Nadler T, Fan PF, Quyet LK, Hofreiter M, Zinner D, Momberg F. 2020. Mitogenomic phylogeny of the Asian colobine genus Trachypithecus with special focus on Trachypithecus phayrei (Blyth, 1847) and description of a new species. Zoological Research 41: 656-669.
  • Rowe KC, Achmadi AS, Fabre PH, Schenk JJ, Steppan SJ, Esselstyn JA. 2019. Oceanic islands of Wallacea as a source for dispersal and diversification of murine rodents. Journal of Biogeography 46: 2752-2768.
  • Ruedi M 1995. Taxonomic revision of shrews of the genus Crocidura from the Sunda Shelf and Sulawesi with a description of two new species (Mammalia: Soricidae). Zoological Journal of the Linnean Society 115: 211-265.
  • Ruedi M. 1996. Phylogenetic evolution and biogeography of Southeast Asian shrews (genus Crocidura: Soricidae). Biological Journal of the Linnean Society 58: 197-219.
  • Ruedi M, Vogel P. 1995. Chromosomal evolution and zoogeographic origin of Southeast Asian shrews (genus Crocidura). Experientia 51: 174-178.
  • Ruedi M, Maddalena T, Yong HS, Vogel P. 1990. The Crocidura fuliginosa species complex (Mammalia: Insectivora) in Peninsular Malaysia: biological, karyological and genetical evidence. Biochemical Systematics and Ecology 18: 573-581.
  • Ruedi M, Auberson M., Savolainen V. 1998. Biogeography of Sulawesian shrews: testing for their origin with a parametric bootstrap on molecular data. Molecular Phylogenetics and Evolution 9: 567-571.
  • Sarker GC, Wostl E, Thammachoti P, Sidik I, Hamidy A, Kurniawan N, Smith EN. 2019. New species, diversity, systematics, and conservation assessment of the puppet toads of Sumatra (Anura: Bufonidae: Sigalegalephrynus). Zootaxa 4679: 365-391.
  • Shaney KJ, Maldonado J, Smart U, Thammachoti P, Fujita M, Hamidy A, Kurniawan N, Harvey MB, Smith EN. 2020. Phylogeography of montane dragons could shed light on the history of forests and diversification processes on Sumatra. Molecular Phylogenetics and Evolution 149: 106840.
  • Sheldon FH, Lim HC, Moyle RG. 2015. Return to the Malay Archipelago: the biogeography of Sundaic rainforest birds. Journal of Ornithology 156: 91-113.
  • Sikes RS. 2016. Animal Care and Use Committee of the American Society of Mammalogists. 2016 guidelines of the American Society of Mammalogists for the use of wild mammals in research and education. Journal of Mammalogy 97: 663-688.
  • Slik JWF, Aiba SI, Bastian M, Brearley FQ, Cannon CH, Eichhorn KAO, Fredriksson G, Kartawinata K , Laumonier Y, Mansor A, Zweifel N. 2011. Soils on exposed Sunda Shelf shaped biogeographic patterns in the equatorial forests of Southeast Asia. Proceedings of the National Academy of Sciences of the USA 108: 12343-12347.
  • Spori Y, Flot JF. 2020. HaplowebMaker and CoMa: two web tools to delimit species using haplowebs and conspecificity matrices. Methods in Ecology and Evolution 11: 1434-1438
  • Stephens M, Smith NJ, Donnelly P. 2001. A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics 68: 978-989.
  • Sukumaran J, Knowles LL. 2017. Multispecies coalescent delimits structure, not species. Proceedings of the National Academy of Sciences of the USA 114: 1607-1612.
  • Taylor JM, Smith SC, Calaby JH. 1985. Altitudinal distribution and body size among New Guinean Rattus (Rodentia: Muridae). Journal of Mammalogy 66: 353-358.
  • Thomas O. 1898. Descriptions of new Bornean and Sumatran mammals. Annals and Magazine of Natural History 7: 247-251.
  • Van den Bergh GD, Li B , Brumm A , Grun R , Yurnaldi D, Moore MW, Kurniawan I, Setiawan R, Aziz F, Roberts RG, Suyono, Storey M, Setiabudi E, Morwood MJ. 2016. Earliest hominin occupation of Sulawesi, Indonesia. Nature 529: 208-211.
  • Wallace AR. 1869. The Malay Archipelago, the land of the orang-utan and the bird of paradise: a narrative of travel with studies of man and nature. London: Macmillan.
  • Whittaker RJ, Fernandez-Palacios JM, Matthews TJ, Borregaard MK, Triantis KA. 2017. Island biogeography: taking the long view of nature's laboratories. Science 357: eaam8326.
  • William-Dee JA 2019. Phylogeography of Bornean shrew (family Soricidae: Crocidura foetida) inferred from Cytochrome b gene and species distribution modeling of three shrews from Malaysia using maximum entropy approach. M.Sc., Unpublished master thesis, Universiti Malaysia Sarawak.
  • Woodruff DS, Turner LM. 2009. The Indochinese-Sundaic zoogeographic transition: a description and analysis of terrestrial mammal species distributions. Journal of Biogeography 36: 803-821.
  • Xia X. 2018. DAMBE7: new and improved tools for data analysis in molecular biology and evolution. Molecular Biology and Evolution 35: 1550-1552.
  • Yang L, Zhang H, Zhang C, Wu J, Wang Z, Li C, Zhang B. 2020. A new species of the genus Crocidura (Mammalia: Eulipotyphla: Soricidae) from Mount Huang, China. Zoological Systematics 45: 1-14.
  • Yuan SL, Jiang XL, Li ZJ, He K, Harada M, Oshida T, Lin LK . 2013 . A mitochondrial phylogeny and biogeographical scenario for Asiatic water shrews of the genus Chimarrogale: implications for taxonomy and lowlatitude migration routes. PLoS One 8: e77156.