{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,20]],"date-time":"2026-10-20T14:30:02Z","timestamp":1792506602041,"version":"4.5.0"},"reference-count":83,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2024,2,20]],"date-time":"2024-02-20T00:00:00Z","timestamp":1708387200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>In mammalian research, it has been debated what can initiate an evolutionary tradeoff between different senses, and the phenomenon of sensory tradeoff in rodents, the most abundant mammalian clade, is not evident. The Nile rat (Arvicanthis niloticus), a murid rodent, recently adapted to a diurnal niche through an evolutionary acquisition of daylight vision with enhanced visual acuity. As such, this model provides an opportunity for a cross-species investigation where comparative morphological and multi-omic analyses of the Nile rat are made with its closely related nocturnal species, e.g. the mouse (Mus musculus) and the rat (Rattus norvegicus). Thus, morphological examinations were performed, and evolutionary reductions in relative sizes of turbinal bone surfaces, the cribriform plate, and the olfactory bulb were discovered in Nile rats. Subsequently, we compared multiple murid genomes, and profiled olfactory epithelium transcriptomes of mice and Nile rats at various ages with RNA sequencing. The results further demonstrate that, in comparison with mouse olfactory receptor (OR) genes, Nile rat OR genes have experienced less frequent gain, more frequent loss, and more frequent expression reduction during their evolution. Furthermore, functional degeneration of coding sequences in the Nile rat lineage was found in OR genes, yet not in other genes. Taken together, these results suggest that acquisition of improved vision in the Nile rat has been accompanied by degeneration of both olfaction-related anatomical structures and OR gene repertoires, consistent with the hypothesis of an olfaction-vision tradeoff initiated by the switch from a nocturnal to a diurnal lifestyle in mammals.<\/jats:p>","DOI":"10.1093\/molbev\/msae037","type":"journal-article","created":{"date-parts":[[2024,2,20]],"date-time":"2024-02-20T15:54:35Z","timestamp":1708444475000},"source":"Crossref","is-referenced-by-count":7,"title":["Degeneration of the Olfactory System in a Murid Rodent that Evolved Diurnalism"],"prefix":"10.1093","volume":"41","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-1163-3113","authenticated-orcid":false,"given":"Ben-Yang","family":"Liao","sequence":"first","affiliation":[{"name":"Institute of Population Health Sciences, National Health Research Institutes , Taiwan , Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Meng-Pin","family":"Weng","sequence":"additional","affiliation":[{"name":"Institute of Population Health Sciences, National Health Research Institutes , Taiwan , Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ting-Yan","family":"Chang","sequence":"additional","affiliation":[{"name":"Institute of Population Health Sciences, National Health Research Institutes , Taiwan , Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew Ying-Fei","family":"Chang","sequence":"additional","affiliation":[{"name":"Institute of Population Health Sciences, National Health Research Institutes , Taiwan , Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yung-Hao","family":"Ching","sequence":"additional","affiliation":[{"name":"Department of Molecular Biology and Human Genetics, Tzu Chi University , Taiwan , Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chia-Hwa","family":"Wu","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center, National Health Research Institutes , Taiwan , Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2024,2,20]]},"reference":[{"key":"2024032920263518200_msae037-B1","doi-asserted-by":"crossref","first-page":"98","DOI":"10.1016\/j.ympev.2018.07.017","article-title":"Fossils know it best: using a new set of fossil calibrations to improve the temporal phylogenetic framework of murid rodents (Rodentia: Muridae)","volume":"128","author":"Aghova","year":"2018","journal-title":"Mol Phylogenet Evol"},{"issue":"S47","key":"2024032920263518200_msae037-B2","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1002\/ajpa.20957","article-title":"Diurnality, nocturnality, and the evolution of primate visual systems","volume":"47","author":"Ankel-Simons","year":"2008","journal-title":"Am J Phys Anthropol Suppl"},{"issue":"4","key":"2024032920263518200_msae037-B3","doi-asserted-by":"crossref","first-page":"431","DOI":"10.1007\/s00359-005-0081-6","article-title":"The relative importance of olfaction and vision in a diurnal and a nocturnal hawkmoth","volume":"192","author":"Balkenius","year":"2006","journal-title":"J Comp Physiol A Neuroethol Sens Neural Behav Physiol"},{"issue":"18","key":"2024032920263518200_msae037-B4","doi-asserted-by":"crossref","first-page":"3214","DOI":"10.1093\/bioinformatics\/bty314","article-title":"RANGER-DTL 2.0: rigorous reconstruction of gene-family evolution by duplication, transfer and loss","volume":"34","author":"Bansal","year":"2018","journal-title":"Bioinformatics"},{"issue":"6790","key":"2024032920263518200_msae037-B5","doi-asserted-by":"crossref","first-page":"1055","DOI":"10.1038\/35016580","article-title":"Mosaic evolution of brain structure in mammals","volume":"405","author":"Barton","year":"2000","journal-title":"Nature"},{"issue":"1326","key":"2024032920263518200_msae037-B6","doi-asserted-by":"crossref","first-page":"381","DOI":"10.1098\/rstb.1995.0076","article-title":"Evolutionary radiation of visual and olfactory brain systems in primates, bats and insectivores","volume":"348","author":"Barton","year":"1995","journal-title":"Philos Trans R Soc Lond B Biol Sci"},{"key":"2024032920263518200_msae037-B7","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1016\/j.semcdb.2021.03.022","article-title":"Olfactory modulation of the medial prefrontal cortex circuitry: implications for social cognition","volume":"129","author":"Bhattarai","year":"2022","journal-title":"Semin Cell Dev Biol"},{"issue":"14","key":"2024032920263518200_msae037-B8","doi-asserted-by":"crossref","first-page":"6929","DOI":"10.1002\/ece3.6343","article-title":"Olfaction at depth: cribriform plate size declines with dive depth and duration in aquatic arctoid carnivorans","volume":"10","author":"Bird","year":"2020","journal-title":"Ecol Evol"},{"issue":"1874","key":"2024032920263518200_msae037-B9","first-page":"20180100","article-title":"Olfaction written in bone: cribriform plate size parallels olfactory receptor gene repertoires in Mammalia","volume":"285","author":"Bird","year":"2018","journal-title":"Proc Biol Sci"},{"issue":"2","key":"2024032920263518200_msae037-B10","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1644\/1545-1542(2000)081<0595:TPOAOT>2.0.CO;2","article-title":"Temporal patterns of activity of the unstriped Nile rat, Arvicanthis niloticus","volume":"81","author":"Blanchong","year":"2000","journal-title":"J Mammal"},{"issue":"5","key":"2024032920263518200_msae037-B11","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1038\/nbt.3519","article-title":"Near-optimal probabilistic RNA-seq quantification","volume":"34","author":"Bray","year":"2016","journal-title":"Nat Biotechnol"},{"issue":"1","key":"2024032920263518200_msae037-B12","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1016\/0092-8674(91)90418-X","article-title":"A novel multigene family may encode odorant receptors: a molecular basis for odor recognition","volume":"65","author":"Buck","year":"1991","journal-title":"Cell"},{"issue":"3-4","key":"2024032920263518200_msae037-B13","doi-asserted-by":"crossref","first-page":"429","DOI":"10.1089\/106652700750050871","article-title":"NOTUNG: a program for dating gene duplications and optimizing gene family trees","volume":"7","author":"Chen","year":"2000","journal-title":"J Comput Biol"},{"issue":"17","key":"2024032920263518200_msae037-B14","doi-asserted-by":"crossref","first-page":"i884","DOI":"10.1093\/bioinformatics\/bty560","article-title":". fastp: an ultra-fast all-in-one FASTQ preprocessor","volume":"34","author":"Chen","year":"2018","journal-title":"Bioinformatics"},{"issue":"5","key":"2024032920263518200_msae037-B15","doi-asserted-by":"crossref","first-page":"e1000112","DOI":"10.1371\/journal.pbio.1000112","article-title":"Lineage-specific biology revealed by a finished genome assembly of the mouse","volume":"7","author":"Church","year":"2009","journal-title":"PLoS Biol"},{"issue":"D1","key":"2024032920263518200_msae037-B16","doi-asserted-by":"crossref","first-page":"D988","DOI":"10.1093\/nar\/gkab1049","article-title":"Ensembl 2022","volume":"50","author":"Cunningham","year":"2022","journal-title":"Nucleic Acids Res"},{"issue":"6","key":"2024032920263518200_msae037-B17","doi-asserted-by":"crossref","first-page":"1549","DOI":"10.1093\/molbev\/msx083","article-title":"Detection of pathways affected by positive selection in Primate lineages ancestral to humans","volume":"34","author":"Daub","year":"2017","journal-title":"Mol Biol Evol"},{"key":"2024032920263518200_msae037-B18","volume-title":"Colobine monkeys: their ecology, behaviour and evolution","author":"Davies Geo","year":"1995"},{"issue":"2","key":"2024032920263518200_msae037-B19","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1111\/j.1365-2028.1985.tb00720.x","article-title":"Growth and development of wild and captive Nile rats, Arvicanthis niloticus (Rodentia: Muridae)","volume":"23","author":"Delany","year":"1985","journal-title":"Afr J Ecol"},{"issue":"12","key":"2024032920263518200_msae037-B20","doi-asserted-by":"crossref","first-page":"e1003998","DOI":"10.1371\/journal.pcbi.1003998","article-title":"Extensive error in the number of genes inferred from draft genome assemblies","volume":"10","author":"Denton","year":"2014","journal-title":"PLoS Comput Biol"},{"key":"2024032920263518200_msae037-B21","doi-asserted-by":"crossref","first-page":"244","DOI":"10.1016\/j.lfs.2015.10.025","article-title":"Men and mice: relating their ages","volume":"152","author":"Dutta","year":"2016","journal-title":"Life Sci"},{"issue":"10","key":"2024032920263518200_msae037-B22","doi-asserted-by":"crossref","first-page":"e1002195","DOI":"10.1371\/journal.pcbi.1002195","article-title":"Accelerated profile HMM searches","volume":"7","author":"Eddy","year":"2011","journal-title":"PLoS Comput Biol"},{"issue":"1","key":"2024032920263518200_msae037-B23","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1186\/s13059-015-0721-2","article-title":"OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy","volume":"16","author":"Emms","year":"2015","journal-title":"Genome Biol"},{"key":"2024032920263518200_msae037-B24","doi-asserted-by":"crossref","first-page":"667","DOI":"10.3389\/fpsyg.2013.00667","article-title":"The evolutionary and genetic origins of consciousness in the Cambrian Period over 500 million years ago","volume":"4","author":"Feinberg","year":"2013","journal-title":"Front Psychol"},{"issue":"5","key":"2024032920263518200_msae037-B25","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1002\/cne.21798","article-title":"Retinal anatomy and visual performance in a diurnal cone-rich laboratory rodent, the Nile grass rat (Arvicanthis niloticus)","volume":"510","author":"Gaillard","year":"2008","journal-title":"J Comp Neurol"},{"issue":"6982","key":"2024032920263518200_msae037-B26","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1038\/nature02426","article-title":"Genome sequence of the Brown Norway rat yields insights into mammalian evolution","volume":"428","author":"Gibbs","year":"2004","journal-title":"Nature"},{"issue":"27","key":"2024032920263518200_msae037-B27","doi-asserted-by":"crossref","first-page":"2723","DOI":"10.1016\/j.visres.2008.09.004","article-title":"The electroretinogram (ERG) of a diurnal cone-rich laboratory rodent, the Nile grass rat (Arvicanthis niloticus)","volume":"48","author":"Gilmour","year":"2008","journal-title":"Vision Res"},{"issue":"19","key":"2024032920263518200_msae037-B28","doi-asserted-by":"crossref","first-page":"6718","DOI":"10.1523\/JNEUROSCI.4287-11.2012","article-title":"Olfactory deficits cause anxiety-like behaviors in mice","volume":"32","author":"Glinka","year":"2012","journal-title":"J Neurosci"},{"issue":"6","key":"2024032920263518200_msae037-B29","doi-asserted-by":"crossref","first-page":"609","DOI":"10.1111\/j.1469-7580.2012.01570.x","article-title":"Respiratory and olfactory turbinal size in canid and arctoid carnivorans","volume":"221","author":"Green","year":"2012","journal-title":"J Anat"},{"key":"2024032920263518200_msae037-B30","first-page":"83","article-title":"Comparative morphometry of the nasal cavity in rats and mice","volume":"135","author":"Gross","year":"1982","journal-title":"J Anat"},{"issue":"2","key":"2024032920263518200_msae037-B31","doi-asserted-by":"crossref","first-page":"339","DOI":"10.2307\/2409412","article-title":"Olfactory-bulb size and nocturnality in birds","volume":"44","author":"Healy","year":"1990","journal-title":"Evolution"},{"key":"2024032920263518200_msae037-B32","doi-asserted-by":"crossref","first-page":"118","DOI":"10.12688\/wellcomeopenres.16854.1","article-title":"The genome sequence of the Norway rat, Rattus norvegicus Berkenhout 1769","volume":"6","author":"Howe","year":"2021","journal-title":"Wellcome Open Res"},{"issue":"6","key":"2024032920263518200_msae037-B33","doi-asserted-by":"crossref","first-page":"1635","DOI":"10.1093\/molbev\/msw046","article-title":"ETE 3: reconstruction, analysis, and visualization of phylogenomic data","volume":"33","author":"Huerta-Cepas","year":"2016","journal-title":"Mol Biol Evol"},{"issue":"6","key":"2024032920263518200_msae037-B34","doi-asserted-by":"crossref","first-page":"1390","DOI":"10.1093\/molbev\/msy028","article-title":"The birth and death of olfactory receptor gene families in mammalian niche adaptation","volume":"35","author":"Hughes","year":"2018","journal-title":"Mol Biol Evol"},{"issue":"1","key":"2024032920263518200_msae037-B35","doi-asserted-by":"crossref","first-page":"1162","DOI":"10.1038\/s41467-019-09087-z","article-title":"Inverse resource allocation between vision and olfaction across the genus Drosophila","volume":"10","author":"Keesey","year":"2019","journal-title":"Nat Commun"},{"issue":"8","key":"2024032920263518200_msae037-B36","doi-asserted-by":"crossref","first-page":"907","DOI":"10.1038\/s41587-019-0201-4","article-title":"Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype","volume":"37","author":"Kim","year":"2019","journal-title":"Nat Biotechnol"},{"issue":"2","key":"2024032920263518200_msae037-B37","doi-asserted-by":"crossref","DOI":"10.1186\/gb-2002-3-2-research0008","article-title":"Selection in the evolution of gene duplications","volume":"3","author":"Kondrashov","year":"2002","journal-title":"Genome Biol"},{"issue":"8","key":"2024032920263518200_msae037-B38","doi-asserted-by":"crossref","first-page":"e1000144","DOI":"10.1371\/journal.pgen.1000144","article-title":"Patterns of positive selection in six Mammalian genomes","volume":"4","author":"Kosiol","year":"2008","journal-title":"PLoS Genet"},{"issue":"1","key":"2024032920263518200_msae037-B39","doi-asserted-by":"crossref","first-page":"153","DOI":"10.1146\/annurev.ecolsys.34.011802.132435","article-title":"Partitioning of time as an ecological resource","volume":"34","author":"Kronfeld-Schor","year":"2003","journal-title":"Annu Rev Ecol Evol Syst"},{"issue":"7","key":"2024032920263518200_msae037-B40","doi-asserted-by":"crossref","first-page":"1812","DOI":"10.1093\/molbev\/msx116","article-title":"TimeTree: a resource for timelines, timetrees, and divergence times","volume":"34","author":"Kumar","year":"2017","journal-title":"Mol Biol Evol"},{"issue":"1","key":"2024032920263518200_msae037-B41","doi-asserted-by":"crossref","first-page":"147","DOI":"10.1186\/s13059-015-0711-4","article-title":"Kiwi genome provides insights into evolution of a nocturnal lifestyle","volume":"16","author":"Le Duc","year":"2015","journal-title":"Genome Biol"},{"issue":"15","key":"2024032920263518200_msae037-B42","doi-asserted-by":"crossref","first-page":"4707","DOI":"10.1073\/pnas.1415046112","article-title":"Unraveling the association between mRNA expressions and mutant phenotypes in a genome-wide assessment of mice","volume":"112","author":"Liao","year":"2015","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"7","key":"2024032920263518200_msae037-B43","doi-asserted-by":"crossref","first-page":"eaaw6441","DOI":"10.1126\/sciadv.aaw6441","article-title":"The genome of Peromyscus leucopus, natural host for Lyme disease and other emerging infections","volume":"5","author":"Long","year":"2019","journal-title":"Sci Adv"},{"key":"2024032920263518200_msae037-B44","doi-asserted-by":"crossref","first-page":"187","DOI":"10.1007\/978-3-030-39831-6_15","volume-title":"Evolution in action: past, present and future","author":"Lundrigan","year":"2020"},{"issue":"4","key":"2024032920263518200_msae037-B45","doi-asserted-by":"crossref","first-page":"478","DOI":"10.1016\/j.devcel.2020.12.019","article-title":"Genome-wide analysis of pseudogenes reveals HBBP1's human-specific essentiality in erythropoiesis and implication in beta-thalassemia","volume":"56","author":"Ma","year":"2021","journal-title":"Dev Cell"},{"issue":"1","key":"2024032920263518200_msae037-B46","doi-asserted-by":"crossref","first-page":"17806","DOI":"10.1038\/s41598-018-35827-0","article-title":"Convergent evolution of an extreme dietary specialisation, the olfactory system of worm-eating rodents","volume":"8","author":"Martinez","year":"2018","journal-title":"Sci Rep"},{"issue":"1","key":"2024032920263518200_msae037-B47","doi-asserted-by":"crossref","first-page":"99","DOI":"10.1186\/s12862-020-01662-z","article-title":"Distinct evolutionary trajectories of V1R clades across mouse species","volume":"20","author":"Miller","year":"2020","journal-title":"BMC Evol Biol"},{"issue":"6","key":"2024032920263518200_msae037-B48","doi-asserted-by":"crossref","first-page":"869","DOI":"10.1002\/cne.23711","article-title":"Brain composition in Godyris zavaleta, a diurnal butterfly, reflects an increased reliance on olfactory information","volume":"523","author":"Montgomery","year":"2015","journal-title":"J Comp Neurol"},{"key":"2024032920263518200_msae037-B49","volume-title":"The mammalian skull","author":"Moore","year":"1981"},{"issue":"12","key":"2024032920263518200_msae037-B50","doi-asserted-by":"crossref","first-page":"951","DOI":"10.1038\/nrg2480","article-title":"The evolution of animal chemosensory receptor gene repertoires: roles of chance and necessity","volume":"9","author":"Nei","year":"2008","journal-title":"Nat Rev Genet"},{"key":"2024032920263518200_msae037-B51","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1007\/978-1-62703-377-0_3","article-title":"Identification of olfactory receptor genes from mammalian genome sequences","volume":"1003","author":"Niimura","year":"2013","journal-title":"Methods Mol Biol"},{"issue":"9","key":"2024032920263518200_msae037-B52","doi-asserted-by":"crossref","first-page":"1485","DOI":"10.1101\/gr.169532.113","article-title":"Extreme expansion of the olfactory receptor gene repertoire in African elephants and evolutionary dynamics of orthologous gene groups in 13 placental mammals","volume":"24","author":"Niimura","year":"2014","journal-title":"Genome Res"},{"issue":"6","key":"2024032920263518200_msae037-B53","doi-asserted-by":"crossref","first-page":"1437","DOI":"10.1093\/molbev\/msy042","article-title":"Acceleration of olfactory receptor gene loss in primate evolution: possible link to anatomical change in sensory systems and dietary transition","volume":"35","author":"Niimura","year":"2018","journal-title":"Mol Biol Evol"},{"issue":"17","key":"2024032920263518200_msae037-B54","doi-asserted-by":"crossref","first-page":"6039","DOI":"10.1073\/pnas.0501922102","article-title":"Evolutionary dynamics of olfactory receptor genes in fishes and tetrapods","volume":"102","author":"Niimura","year":"2005","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"8","key":"2024032920263518200_msae037-B55","doi-asserted-by":"crossref","first-page":"e708","DOI":"10.1371\/journal.pone.0000708","article-title":"Extensive gains and losses of olfactory receptor genes in mammalian evolution","volume":"2","author":"Niimura","year":"2007","journal-title":"PLoS One"},{"issue":"11","key":"2024032920263518200_msae037-B56","doi-asserted-by":"crossref","first-page":"1792","DOI":"10.1242\/jeb.017574","article-title":"Energy limitation as a selective pressure on the evolution of sensory systems","volume":"211","author":"Niven","year":"2008","journal-title":"J Exp Biol"},{"issue":"6588","key":"2024032920263518200_msae037-B57","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1126\/science.abj6987","article-title":"The complete sequence of a human genome","volume":"376","author":"Nurk","year":"2022","journal-title":"Science"},{"issue":"24","key":"2024032920263518200_msae037-B58","doi-asserted-by":"crossref","first-page":"1917","DOI":"10.1016\/j.cub.2008.10.029","article-title":"ATP consumption by mammalian rod photoreceptors in darkness and in light","volume":"18","author":"Okawa","year":"2008","journal-title":"Curr Biol"},{"key":"2024032920263518200_msae037-B59","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1016\/j.conb.2021.08.005","article-title":"Evolution of sensory systems","volume":"71","author":"Oteiza","year":"2021","journal-title":"Curr Opin Neurobiol"},{"issue":"8","key":"2024032920263518200_msae037-B60","doi-asserted-by":"crossref","first-page":"1830","DOI":"10.1093\/molbev\/mst083","article-title":"Accelerated evolution after gene duplication: a time-dependent process affecting just one copy","volume":"30","author":"Pegueroles","year":"2013","journal-title":"Mol Biol Evol"},{"key":"2024032920263518200_msae037-B61","doi-asserted-by":"crossref","first-page":"55","DOI":"10.4098\/AT.arch.97-7","article-title":"A quantitative study of diet in three species of rodents in natural and irrigated savanna fields","volume":"42","author":"Rabiu","year":"1997","journal-title":"Acta Theriol."},{"key":"2024032920263518200_msae037-B62","doi-asserted-by":"crossref","first-page":"23","DOI":"10.3389\/fnana.2014.00023","article-title":"Greater addition of neurons to the olfactory bulb than to the cerebral cortex of eulipotyphlans but not rodents, afrotherians or primates","volume":"8","author":"Ribeiro","year":"2014","journal-title":"Front Neuroanat"},{"issue":"5","key":"2024032920263518200_msae037-B63","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1016\/S1364-6613(00)01625-9","article-title":"Animal cognition and the rat olfactory system","volume":"5","author":"Slotnick","year":"2001","journal-title":"Trends Cogn Sci"},{"issue":"1","key":"2024032920263518200_msae037-B64","doi-asserted-by":"crossref","first-page":"26041","DOI":"10.1038\/srep26041","article-title":"Differential investment in visual and olfactory brain areas reflects behavioural choices in hawk moths","volume":"6","author":"Stockl","year":"2016","journal-title":"Sci Rep"},{"issue":"2","key":"2024032920263518200_msae037-B65","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1080\/09670878409370869","article-title":"Food preference in the Nile rat Arvicanthis niloticus","volume":"30","author":"Suliman","year":"1984","journal-title":"Trop Pest Manag"},{"issue":"5","key":"2024032920263518200_msae037-B66","first-page":"823","article-title":"Phylogenetic test of the molecular clock and linearized trees","volume":"12","author":"Takezaki","year":"1995","journal-title":"Mol Biol Evol"},{"issue":"22","key":"2024032920263518200_msae037-B67","doi-asserted-by":"crossref","first-page":"4673","DOI":"10.1093\/nar\/22.22.4673","article-title":"CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice","volume":"22","author":"Thompson","year":"1994","journal-title":"Nucleic Acids Res"},{"issue":"4","key":"2024032920263518200_msae037-B68","doi-asserted-by":"crossref","first-page":"448","DOI":"10.1101\/gr.234096.117","article-title":"Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes","volume":"28","author":"Thybert","year":"2018","journal-title":"Genome Res"},{"issue":"1","key":"2024032920263518200_msae037-B69","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1186\/s12915-022-01427-8","article-title":"A haplotype-resolved genome assembly of the Nile rat facilitates exploration of the genetic basis of diabetes","volume":"20","author":"Toh","year":"2022","journal-title":"BMC Biol"},{"issue":"7","key":"2024032920263518200_msae037-B70","doi-asserted-by":"crossref","first-page":"4040","DOI":"10.1073\/pnas.96.7.4040","article-title":"Functional identification and reconstitution of an odorant receptor in single olfactory neurons","volume":"96","author":"Touhara","year":"1999","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"1","key":"2024032920263518200_msae037-B71","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1016\/0031-9384(95)02274-0","article-title":"Behavioral differences between outbred Wistar, inbred Fischer 344, Brown Norway, and hybrid Fischer 344","volume":"60","author":"van der Staay","year":"1996","journal-title":"Physiol Behav"},{"issue":"6915","key":"2024032920263518200_msae037-B72","doi-asserted-by":"crossref","first-page":"520","DOI":"10.1038\/nature01262","article-title":"Initial sequencing and comparative analysis of the mouse genome","volume":"420","author":"Waterston","year":"2002","journal-title":"Nature"},{"issue":"1","key":"2024032920263518200_msae037-B73","doi-asserted-by":"crossref","first-page":"61","DOI":"10.1023\/A:1010209925783","article-title":"Genetic dissection of the olfactory bulbs of mice: QTLs on four chromosomes modulate bulb size","volume":"31","author":"Williams","year":"2001","journal-title":"Behav Genet"},{"issue":"1885","key":"2024032920263518200_msae037-B74","first-page":"20181523","article-title":"Testing the sensory trade-off hypothesis in New World bats","volume":"285","author":"Wu","year":"2018","journal-title":"Proc Biol Sci"},{"issue":"8","key":"2024032920263518200_msae037-B75","doi-asserted-by":"crossref","first-page":"1586","DOI":"10.1093\/molbev\/msm088","article-title":"PAML 4: phylogenetic analysis by maximum likelihood","volume":"24","author":"Yang","year":"2007","journal-title":"Mol Biol Evol"},{"issue":"3","key":"2024032920263518200_msae037-B76","doi-asserted-by":"crossref","first-page":"306","DOI":"10.1016\/j.ygeno.2005.05.012","article-title":"Composition and evolution of the V2r vomeronasal receptor gene repertoire in mice and rats","volume":"86","author":"Yang","year":"2005","journal-title":"Genomics"},{"issue":"7862","key":"2024032920263518200_msae037-B77","doi-asserted-by":"crossref","first-page":"227","DOI":"10.1038\/s41586-021-03535-x","article-title":"Evolutionary and biomedical insights from a marmoset diploid genome assembly","volume":"594","author":"Yang","year":"2021","journal-title":"Nature"},{"issue":"1657","key":"2024032920263518200_msae037-B78","first-page":"667","article-title":"Olfactory acuity in theropods: palaeobiological and evolutionary implications","volume":"276","author":"Zelenitsky","year":"2009","journal-title":"Proc Biol Sci"},{"issue":"12","key":"2024032920263518200_msae037-B79","doi-asserted-by":"crossref","first-page":"1437","DOI":"10.1093\/bioinformatics\/btl116","article-title":"PseudoPipe: an automated pseudogene identification pipeline","volume":"22","author":"Zhang","year":"2006","journal-title":"Bioinformatics"},{"issue":"14","key":"2024032920263518200_msae037-B80","doi-asserted-by":"crossref","first-page":"8337","DOI":"10.1073\/pnas.1331721100","article-title":"Evolutionary deterioration of the vomeronasal pheromone transduction pathway in catarrhine primates","volume":"100","author":"Zhang","year":"2003","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"7","key":"2024032920263518200_msae037-B81","doi-asserted-by":"crossref","first-page":"409","DOI":"10.1038\/nrg3950","article-title":"Determinants of the rate of protein sequence evolution","volume":"16","author":"Zhang","year":"2015","journal-title":"Nat Rev Genet"},{"issue":"22","key":"2024032920263518200_msae037-B82","doi-asserted-by":"crossref","first-page":"8980","DOI":"10.1073\/pnas.0813201106","article-title":"The evolution of color vision in nocturnal mammals","volume":"106","author":"Zhao","year":"2009","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"1","key":"2024032920263518200_msae037-B83","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1186\/1745-6150-9-20","article-title":"A new rhesus macaque assembly and annotation for next-generation sequencing analyses","volume":"9","author":"Zimin","year":"2014","journal-title":"Biol Direct"}],"container-title":["Molecular Biology and Evolution"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/mbe\/advance-article-pdf\/doi\/10.1093\/molbev\/msae037\/56719745\/msae037.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/mbe\/article-pdf\/41\/3\/msae037\/57087441\/msae037.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/mbe\/article-pdf\/41\/3\/msae037\/57087441\/msae037.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,3,29]],"date-time":"2024-03-29T20:27:35Z","timestamp":1711744055000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/mbe\/article\/doi\/10.1093\/molbev\/msae037\/7611404"}},"subtitle":[],"editor":[{"given":"Yoko","family":"Satta","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2024,2,20]]},"references-count":83,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2024,3,1]]}},"URL":"https:\/\/doi.org\/10.1093\/molbev\/msae037","relation":{},"ISSN":["0737-4038","1537-1719"],"issn-type":[{"value":"0737-4038","type":"print"},{"value":"1537-1719","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2024,3]]},"published":{"date-parts":[[2024,2,20]]},"article-number":"msae037"}}