{"id":"https://openalex.org/W1946200713","doi":null,"title":"Phylogeography of the southern African vlei rat, Otomys irroratus, inferred from chromosomal and DNA sequence data","display_name":"Phylogeography of the southern African vlei rat, Otomys irroratus, inferred from chromosomal and DNA sequence data","publication_year":2010,"publication_date":"2010-12-01","ids":{"openalex":"https://openalex.org/W1946200713","mag":"1946200713"},"language":"en","primary_location":{"id":"pmh:oai:scholar.sun.ac.za:10019.1/5476","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10019.1/5476","pdf_url":"http://hdl.handle.net/10019.1/5476","source":{"id":"https://openalex.org/S4306400300","display_name":"SUNScholar (Stellenbosch University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I26092322","host_organization_name":"Stellenbosch University","host_organization_lineage":["https://openalex.org/I26092322"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://hdl.handle.net/10019.1/5476","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5004286408","display_name":"Adriaan Engelbrecht","orcid":"https://orcid.org/0000-0001-8846-4069","observed_orcids":["https://orcid.org/0000-0001-8846-4069"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Adriaan Engelbrecht","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-8846-4069","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5004286408"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10012","display_name":"Genetic diversity and population structure","score":0.9887999892234802,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10012","display_name":"Genetic diversity and population structure","score":0.9887999892234802,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.006200000178068876,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11354","display_name":"Evolution and Paleontology Studies","score":0.0008999999845400453,"subfield":{"id":"https://openalex.org/subfields/1911","display_name":"Paleontology"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/otomys-irroratus","display_name":"Otomys irroratus","score":0.9819999933242798},{"id":"https://openalex.org/keywords/phylogeography","display_name":"phylogeography","score":0.9950000047683716},{"id":"https://openalex.org/keywords/pericentric-inversion","display_name":"pericentric inversion","score":0.8370000123977661},{"id":"https://openalex.org/keywords/agnors","display_name":"AgNORs","score":0.7300000190734863},{"id":"https://openalex.org/keywords/b-chromosomes","display_name":"B chromosomes","score":0.6759999990463257},{"id":"https://openalex.org/keywords/karyotype-variation","display_name":"karyotype variation","score":0.6119999885559082},{"id":"https://openalex.org/keywords/cytochrome-b","display_name":"cytochrome b","score":0.6869999766349792},{"id":"https://openalex.org/keywords/postmating-isolation","display_name":"postmating isolation","score":0.7179999947547913},{"id":"https://openalex.org/keywords/recombination-suppression","display_name":"recombination suppression","score":0.6449999809265137},{"id":"https://openalex.org/keywords/southern-africa","display_name":"Southern Africa","score":0.44999998807907104},{"id":"https://openalex.org/keywords/museum-specimens","display_name":"museum specimens","score":0.49799999594688416},{"id":"https://openalex.org/keywords/chromosome-evolution","display_name":"karyotype evolution","score":0.33799999952316284}],"concepts":[{"id":"https://openalex.org/C94043034","wikidata":"https://www.wikidata.org/wiki/Q377756","display_name":"Phylogeography","level":4,"score":0.8445733189582825},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.6229255795478821},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5613695383071899},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5145274996757507},{"id":"https://openalex.org/C2993807623","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genetic data","level":3,"score":0.43961766362190247},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.4335900545120239},{"id":"https://openalex.org/C90856448","wikidata":"https://www.wikidata.org/wiki/Q431","display_name":"Zoology","level":1,"score":0.4333916902542114},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3780291676521301},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.28614139556884766},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16459470987319946},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.13201597332954407},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.06462058424949646},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.05917537212371826}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:scholar.sun.ac.za:10019.1/5476","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10019.1/5476","pdf_url":"http://hdl.handle.net/10019.1/5476","source":{"id":"https://openalex.org/S4306400300","display_name":"SUNScholar (Stellenbosch University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I26092322","host_organization_name":"Stellenbosch University","host_organization_lineage":["https://openalex.org/I26092322"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},{"id":"mag:1946200713","doi":null,"is_oa":false,"landing_page_url":"https://scholar.sun.ac.za:443/bitstream/10019.1/5476/2/engelbrecht_phylogeography_2010.pdf","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:scholar.sun.ac.za:10019.1/5476","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10019.1/5476","pdf_url":"http://hdl.handle.net/10019.1/5476","source":{"id":"https://openalex.org/S4306400300","display_name":"SUNScholar (Stellenbosch University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I26092322","host_organization_name":"Stellenbosch University","host_organization_lineage":["https://openalex.org/I26092322"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320322663","display_name":"Universiteit Stellenbosch","ror":"https://ror.org/05bk57929"},{"id":"https://openalex.org/F4320325529","display_name":"University of Venda","ror":"https://ror.org/0338xea48"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1946200713.pdf","grobid_xml":"https://content.openalex.org/works/W1946200713.grobid-xml"},"referenced_works_count":131,"referenced_works":["https://openalex.org/W5224728","https://openalex.org/W10588058","https://openalex.org/W91058258","https://openalex.org/W125421954","https://openalex.org/W199886223","https://openalex.org/W300486193","https://openalex.org/W349076059","https://openalex.org/W1480092759","https://openalex.org/W1487638970","https://openalex.org/W1507784575","https://openalex.org/W1545604506","https://openalex.org/W1555476426","https://openalex.org/W1781929198","https://openalex.org/W1836702488","https://openalex.org/W1845222285","https://openalex.org/W1901627773","https://openalex.org/W1919772617","https://openalex.org/W1964241022","https://openalex.org/W1964870910","https://openalex.org/W1965213652","https://openalex.org/W1965929841","https://openalex.org/W1968038806","https://openalex.org/W1968560499","https://openalex.org/W1969283782","https://openalex.org/W1973861304","https://openalex.org/W1974863751","https://openalex.org/W1978398000","https://openalex.org/W1980225297","https://openalex.org/W1983017240","https://openalex.org/W1984368196","https://openalex.org/W1984731778","https://openalex.org/W1984870718","https://openalex.org/W1986642144","https://openalex.org/W1989270643","https://openalex.org/W1993225534","https://openalex.org/W1993982518","https://openalex.org/W1996355054","https://openalex.org/W1997727502","https://openalex.org/W2001440200","https://openalex.org/W2003197664","https://openalex.org/W2007993714","https://openalex.org/W2008500416","https://openalex.org/W2008575203","https://openalex.org/W2013801396","https://openalex.org/W2016596510","https://openalex.org/W2018286686","https://openalex.org/W2018331668","https://openalex.org/W2020953156","https://openalex.org/W2022223949","https://openalex.org/W2022935972","https://openalex.org/W2026960083","https://openalex.org/W2030404431","https://openalex.org/W2030966943","https://openalex.org/W2034491150","https://openalex.org/W2037462145","https://openalex.org/W2037882155","https://openalex.org/W2037907305","https://openalex.org/W2038941964","https://openalex.org/W2040721999","https://openalex.org/W2045562073","https://openalex.org/W2045830395","https://openalex.org/W2046041989","https://openalex.org/W2047213918","https://openalex.org/W2049032453","https://openalex.org/W2050511288","https://openalex.org/W2051902571","https://openalex.org/W2054008728","https://openalex.org/W2057266450","https://openalex.org/W2058815839","https://openalex.org/W2058894952","https://openalex.org/W2060132905","https://openalex.org/W2069182969","https://openalex.org/W2074742642","https://openalex.org/W2084221226","https://openalex.org/W2084947067","https://openalex.org/W2085569604","https://openalex.org/W2087923457","https://openalex.org/W2089982141","https://openalex.org/W2090779920","https://openalex.org/W2092690817","https://openalex.org/W2093801487","https://openalex.org/W2096711345","https://openalex.org/W2097458218","https://openalex.org/W2100444509","https://openalex.org/W2108087670","https://openalex.org/W2108783100","https://openalex.org/W2109121235","https://openalex.org/W2110835349","https://openalex.org/W2111486924","https://openalex.org/W2111870960","https://openalex.org/W2114415740","https://openalex.org/W2118067630","https://openalex.org/W2133036682","https://openalex.org/W2134790412","https://openalex.org/W2135416390","https://openalex.org/W2137873566","https://openalex.org/W2138033144","https://openalex.org/W2139637265","https://openalex.org/W2140008879","https://openalex.org/W2141233014","https://openalex.org/W2143155386","https://openalex.org/W2144547440","https://openalex.org/W2147039800","https://openalex.org/W2148983576","https://openalex.org/W2150477652","https://openalex.org/W2151725342","https://openalex.org/W2154236504","https://openalex.org/W2154594064","https://openalex.org/W2155813507","https://openalex.org/W2159099815","https://openalex.org/W2160167174","https://openalex.org/W2161444534","https://openalex.org/W2163133288","https://openalex.org/W2164418313","https://openalex.org/W2166972836","https://openalex.org/W2167168155","https://openalex.org/W2167227595","https://openalex.org/W2172760571","https://openalex.org/W2176756564","https://openalex.org/W2177333382","https://openalex.org/W2289266219","https://openalex.org/W2306820501","https://openalex.org/W2317036318","https://openalex.org/W2321374891","https://openalex.org/W2322113867","https://openalex.org/W2399354060","https://openalex.org/W2464417523","https://openalex.org/W2752196741","https://openalex.org/W2911599130","https://openalex.org/W3112327705","https://openalex.org/W4239149238"],"related_works":["https://openalex.org/W1742965029","https://openalex.org/W2281791428","https://openalex.org/W2271185021","https://openalex.org/W7055259394","https://openalex.org/W2117382120","https://openalex.org/W7046299935","https://openalex.org/W4237177472","https://openalex.org/W2464772591","https://openalex.org/W2045830395","https://openalex.org/W124926582"],"abstract_inverted_index":{"ENGLISH":[0],"ABSTRACT:":[1],"This":[2],"study":[3],"examines":[4],"the":[5,8,16,53,70,89,125,154,183,196,204,221,225,235,249,260,291,294,298,306,310,314,319,332,335,340,344,380,394,413,433,451,495,508],"phylogeography":[6],"of":[7,40,45,66,94,99,153,193,218,224,239,271,297,309,313,343,351,386,405,529],"southern":[9],"African":[10],"vlei":[11,205],"rat,":[12],"Otomys":[13],"\\nirroratus":[14],"using":[15,25,37],"mtDNA":[17,352],"cyt":[18,353],"b":[19,354],"gene":[20],"and":[21,27,31,63,143,168,254,287,338,358,366,382,402,417,421],"chromosomal":[22],"data":[23],"derived":[24],"G-,":[26],"C-banding,":[28],"\\nAg-NOR":[29],"staining":[30],"fluorescence":[32],"in":[33,108,149,165,188,203,213,220,248,259,262,316,379,393,469,474],"situ":[34],"hybridization":[35],"(FISH":[36],"flow":[38],"sorts":[39],"Myotomys":[41],"\\nunisulcatus).":[42],"A":[43,375,432,457,525],"total":[44],"N":[46,74,81,100,272],"=":[47,72,75,82,101,266,273],"102":[48],"specimens":[49,103,127,150,155],"were":[50,129,146,163,372],"used":[51],"from":[52,105,115,318,355,360,487],"Western":[54,381],"Cape,":[55,57,59,396],"Eastern":[56,383,395],"\\nNorthern":[58],"Free":[60,320,397],"State,":[61,398],"Mpumalanga":[62],"KwaZulu-Natal":[64],"provinces":[65,385,404],"South":[67,95,109,387,406],"Africa.":[68,96,388,407],"Of":[69,124],"\\nN":[71],"102,":[73],"55":[76,102,126,274],"comprised":[77],"fresh":[78,356],"material":[79,86,357],"while":[80,429],"47":[83],"comprises":[84],"museum":[85,361],"obtained":[87,349],"\\nfrom":[88],"Durban":[90],"Natural":[91],"Science":[92],"Museum":[93],"\\nCytogentic":[97],"analysis":[98,440],"collected":[104],"seven":[106],"localities":[107],"Africa":[110],"\\nrevealed":[111],"intra-specific":[112],"variation":[113,247,261],"resulting":[114,258],"two":[116,326,369,452,496],"rearrangements,":[117],"namely":[118],"pericentric":[119],"inversions":[120,159,162,187,199,460],"\\nand":[121],"heterochromatin":[122],"variation.":[123],"that":[128,177,208,494],"analyzed":[130],"47%":[131],"contained":[132,156],"\\ninversions":[133],"or":[134,237],"centromeric":[135],"shifts":[136],"on":[137,278,334,339],"four":[138,158],"autosomes":[139],"(OIR1,":[140],"OIR4,":[141],"OIR6":[142],"OIR10)":[144],"which":[145,245,461,466,484,502],"\\npresent":[147],"singly":[148],"(i.e.":[151],"none":[152],"all":[157],"\\nconcurrently).":[160],"These":[161],"present":[164],"both":[166],"homozygous":[167],"heterozygous":[169],"state":[170],"over":[171],"a":[172,479],"\\nwide":[173],"geographic":[174],"range":[175],"suggesting":[176],"they":[178,209],"are":[179,210,467],"floating":[180,201,464],"polymorphisms.":[181],"Given":[182],"potential":[184],"role":[185],"\\nof":[186,198],"post-mating":[189],"isolation":[190],"(through":[191],"production":[192],"aneuploid":[194],"gametes),":[195],"prevalence":[197],"as":[200,455,463],"polymorphisms":[202,465],"rats":[206],"suggest":[207],"probably":[211],"retained":[212],"\\nthe":[214],"population":[215],"through":[216],"suppression":[217],"recombination":[219],"inverted":[222],"regions":[223],"chromosomes.":[226],"\\nIn":[227],"addition,":[228],"differences":[229],"between":[230,412,422],"populations":[231],"is":[232,419,427,476,485,532],"due":[233],"to":[234,290,331],"presence":[236],"absence":[238],"heterochromatic":[240],"\\narms":[241],"(and":[242],"not":[243],"inversions),":[244],"cause":[246],"NFa":[250],"(40":[251],"\u2013":[252,268],"49)":[253],"supernumerary":[255],"B":[256,390,426],"\\nchromosomes,":[257],"diploid":[263],"number":[264],"(2n":[265],"28":[267],"32).":[269],"Analysis":[270],"\\nspecimens":[275,376,391],"revealed":[276,441],"Ag-NORs":[277],"7":[279],"autosomal":[280],"pairs":[281],"1,":[282],"2,":[283],"5,":[284],"7,":[285],"8":[286,301],"9":[288],"proximal":[289,330],"centromere":[292,333],"\\non":[293],"short":[295,336],"arm":[296,337],"chromosome.":[299],"Pair":[300,323],"also":[302,449],"displayed":[303],"Ag-NOR":[304],"at":[305],"distal":[307],"end":[308,342],"long":[311,345],"\\narm":[312],"chromosome":[315],"individuals":[317],"State":[321],"province.":[322],"3":[324],"showed":[325],"Ag-":[327],"\\nNORs":[328],"occurring":[329],"terminal":[341],"\\narm,":[346],"respectively.":[347],"\\nI":[348],"953bp":[350],"400bp":[359],"material.":[362],"\\nUsing":[363],"maximum":[364],"parsimony":[365],"Bayesian":[367],"inference":[368],"main":[370,414],"clades":[371,415,497],"retrieved.":[373],"Clade":[374,389,472],"occur":[377,392,462],"mainly":[378],"Cape":[384,401],"KwaZulu-Natal,":[399],"Northern":[400],"\\nMpumalanga":[403],"The":[408],"mean":[409],"sequence":[410],"divergence":[411,435],"\\n(A":[416],"B)":[418],"7.0%":[420],"sub-clades":[423],"comprising":[424],"clade":[425,431,439,456,470,488],"4.8%,":[428],"within":[430,444,513],"\\nsequence":[434],"was":[436],"1.91%.":[437],"Nested":[438],"allopatric":[442],"fragmentation":[443],"\\nO.":[445],"irroratus.":[446],"Chromosomal":[447],"characters":[448],"support":[450],"evolutionary":[453],"lineages":[454],"has":[458],"\\npericentric":[459],"absent":[468,486],"B.":[471],"\\nB":[473],"turn":[475],"fixed":[477],"for":[478],"complex":[480,516],"tandem":[481],"fusion":[482],"rearrangement":[483],"A.":[489],"\\nDivergence":[490],"date":[491],"estimates":[492],"indicate":[493],"separated":[498],"around":[499],"1.1":[500],"MYA,":[501],"\\ncoincides":[503],"with":[504],"climate":[505],"changes":[506],"since":[507],"late":[509],"Pliocene/Pleistocene":[510],"epochs.":[511],"Cladogenesis":[512],"\\nthis":[514],"species":[515],"could":[517],"therefore":[518,533],"have":[519],"been":[520],"influenced":[521],"by":[522,535],"habitat":[523],"fragmentation.":[524],"full":[526],"\\ntaxonomic":[527],"review":[528],"O.":[530],"irroratus":[531],"warranted":[534],"this":[536],"study.":[537]},"counts_by_year":[],"updated_date":"2026-11-11T12:16:26.678958","created_date":"2016-06-24T00:00:00"}
