Genomic legacy of the African cheetah, Acinonyx jubatus
Open accessAbstract
BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs reveals extreme genomic depletion in SNV incidence, SNV density, SNVs of coding genes, MHC class I and II genes, and mitochondrial DNA SNVs. Cheetah genomes are on average 95 % homozygous compared to the genomes of the outbred domestic cat (24.08 % homozygous), Virunga Mountain Gorilla (78.12 %), inbred Abyssinian cat (62.63 %), Tasmanian devil, domestic dog and other mammalian species. Demographic estimators impute two ancestral population bottlenecks: one >100,000 years ago coincident with cheetah migrations out of the Americas and into Eurasia and Africa, and a second 11,084-12,589 years ago in Africa coincident with late Pleistocene large mammal extinctions. MHC class I gene loss and dramatic reduction in functional diversity of MHC genes would explain why cheetahs ablate skin graft rejection among unrelated individuals. Significant excess of non-synonymous mutations in AKAP4 (p<0.02), a gene mediating spermatozoon development, indicates cheetah fixation of five function-damaging amino acid variants distinct from AKAP4 homologues of other Felidae or mammals; AKAP4 dysfunction may cause the cheetah's extremely high (>80 %) pleiomorphic sperm. CONCLUSIONS: The study provides an unprecedented genomic perspective for the rare cheetah, with potential relevance to the species' natural history, physiological adaptations and unique reproductive disposition.
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Muskox genetic diversity is lower than that of the Tasmanian devil and the cheetah.
“Muskox genetic diversity is lower than two mammalian species under threat that have undergo recent genetic bottlenecks, the Tasmanian devil (Sarcophilus harrisii)66 and the cheetah (Acinonyx jubatus)67.”
From Chromosomal-level reference genome assembly of muskox (Ovibos moschatus) from Banks Island in the Canadian Arctic, a resource for conservation genomics (2024) · cites this paper as [67]
The Background and Results describe the cheetah’s severely reduced genetic diversity, and the Results identify past population bottlenecks. The paper does not compare cheetah diversity with muskox diversity, so it does not establish that muskox diversity is lower. The Tasmanian devil has a separate citation in the citing sentence. (LLM, conf=0.84)
Experimental — accuracy not yet measuredProgressive Cactus has been developed over several years and has already been successfully used as an integral component of high-profile comparative genomics projects.
“Progressive Cactus has been developed over several years, and has already been successfully used as an integral component of high-profile comparative genomics projects16–20.”
From Progressive Cactus is a multiple-genome aligner for the thousand-genome era (2020) · cites this paper as [17]
The Results and Materials and methods (pages unavailable) report that Progressive Cactus was used to align the cheetah genome with other mammalian genomes, supporting its use in a comparative genomics project. This paper does not establish that the software was developed over several years or used in multiple projects. (LLM, conf=0.87)
Experimental — accuracy not yet measured
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Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302 · see citing works
The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041 · see citing works
Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607 · see citing works
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Katoh, K., & Standley, D. M. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst010 · Cited by 46,209 · see citing works
MUSCLE: multiple sequence alignment with high accuracy and high throughput
Edgar, R. C. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh340 · Cited by 44,662 · see citing works
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437 · see citing works
The variant call format and VCFtools
Danecek, P., Auton, A., Abecasis, G. R., Albers, C. A., Banks, E., DePristo, M. A., Handsaker, R. E., Lunter, G. A., Marth, G., Sherry, S. T., et al. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr330 · Cited by 16,008 · see citing works
PAML 4: Phylogenetic Analysis by Maximum Likelihood
Yang, Z. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm088 · Cited by 13,879 · see citing works
A method and server for predicting damaging missense mutations.
Adzhubei, I. A., Schmidt, S., Peshkin, L., Ramensky, V. E., Gerasimova, A., Bork, P., Kondrashov, A. S., & Sunyaev, S. R. (2010) · Nature Methods · doi:10.1038/nmeth0410-248 · Cited by 13,194 · see citing works
Cingolani, P., Platts, A., Wang, L. L., Coon, M., Nguyen, T., Wang, L., Land, S. J., Lu, X., & Ruden, D. M. (2012) · Fly · doi:10.4161/fly.19695 · Cited by 11,816 · see citing works
tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
Lowe, T. M., & Eddy, S. R. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.5.955 · Cited by 11,120 · see citing works
Circos: An information aesthetic for comparative genomicsPreprint
Krzywinski, M. I., Schein, J. E., Birol, İ., Connors, J. M., Gascoyne, R. D., Horsman, D. E., Jones, S. J. M., & Marra, M. A. (2009) · Genome Research · doi:10.1101/gr.092759.109 · Cited by 10,838 · see citing works
Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis
Castresana, J. (2000) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a026334 · Cited by 10,447 · see citing works
Tandem repeats finder: a program to analyze DNA sequences
Benson, G. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.2.573 · Cited by 9,374 · see citing works
InterProScan 5: genome-scale protein function classification
JONES, P. M., Binns, D., Chang, H.-Y., Fraser, M., Li, W., McAnulla, C., McWilliam, H., Maslen, J., Mitchell, A., Nuka, G., et al. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu031 · Cited by 9,181 · see citing works
The genetic legacy of the Quaternary ice ages
Hewitt, G. M. (2000) · Nature · doi:10.1038/35016000 · Cited by 7,177 · see citing works
Talavera, G., & Castresana, J. (2007) · Systematic Biology · doi:10.1080/10635150701472164 · Cited by 5,599 · see citing works
PAML: a program package for phylogenetic analysis by maximum likelihood
Yang, Z. (1997) · Computer applications in the biosciences · doi:10.1093/bioinformatics/13.5.555 · Cited by 5,344 · see citing works
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
Luo, R., Liu, B., Xie, Y., Li, Z., Huang, W., Yuan, J., He, G., Chen, Y., Pan, Q., Liu, Y., et al. (2012) · GigaScience · doi:10.1186/2047-217x-1-18 · Cited by 5,270 · see citing works
Self-citationmiRBase: microRNA sequences, targets and gene nomenclature
Griffiths‐Jones, S. (2005) · Nucleic Acids Research · doi:10.1093/nar/gkj112 · Cited by 4,713 · see citing works
Introduction to conservation genetics
Frankham, R., Ballou, J. D., & Briscoe, D. A. (2002) · Choice Reviews Online · doi:10.5860/choice.40-1529 · Cited by 3,521 · see citing works
Repbase Update, a database of eukaryotic repetitive elements
Jurka, J., Kapitonov, V. V., Pavlı́ček, A., Klonowski, P., Kohany, O., & Walichiewicz, J. (2005) · Cytogenetic and Genome Research · doi:10.1159/000084979 · Cited by 3,331 · see citing works
Introduction to Conservation Genetics
Frankham, R., Ballou, J. D., Briscoe, D. A., & McInnes, K. H. (2002) · Cambridge University Press eBooks · doi:10.1017/cbo9780511808999 · Cited by 3,139 · see citing works
Browning, S. R., & Browning, B. L. (2007) · The American Journal of Human Genetics · doi:10.1086/521987 · Cited by 3,138 · see citing works
GeneWise and GenomewisePreprint
Birney, E., Clamp, M. E., & Durbin, R. M. (2004) · Genome Research · doi:10.1101/gr.1865504 · Cited by 2,799 · see citing works
Inference of human population history from individual whole-genome sequences
Li, H., & Durbin, R. (2011) · Nature · doi:10.1038/nature10231 · Cited by 2,590 · see citing works
Genome sequence, comparative analysis and haplotype structure of the domestic dog
members, B. S. P., Lindblad-Toh, K., Wade, C. M., Mikkelsen, T. S., Karlsson, E. K., Jaffe, D. B., Kamal, M., Clamp, M., Chang, J. L., Kulbokas, E. J., et al. (2005) · Nature · doi:10.1038/nature04338 · Cited by 2,568 · see citing works
Self-citationGutenkunst, R. N., Hernandez, R. D., Williamson, S. H., & Bustamante, C. D. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000695 · Cited by 1,906 · see citing works
CAFE: a computational tool for the study of gene family evolution
De Bie, T., Cristianini, N., Demuth, J. P., & Hahn, M. W. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl097 · Cited by 1,790 · see citing works
Zhang, J. (2005) · Molecular Biology and Evolution · doi:10.1093/molbev/msi237 · Cited by 1,785 · see citing works
Rfam: annotating non-coding RNAs in complete genomes
Griffiths‐Jones, S. (2004) · Nucleic Acids Research · doi:10.1093/nar/gki081 · Cited by 1,701 · see citing works
Gene prediction with a hidden Markov model and a new intron submodel
Stanke, M., & Waack, S. (2003) · Bioinformatics · doi:10.1093/bioinformatics/btg1080 · Cited by 1,643 · see citing works
Infernal 1.0: inference of RNA alignments
Nawrocki, E. P., Kolbe, D. L., & Eddy, S. R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp157 · Cited by 1,428 · see citing works
Yang, Z., & Nielsen, R. (2002) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a004148 · Cited by 1,374 · see citing works
Cunningham, F., Amode, M. R., Barrell, D., Beal, K., Billis, K., Brent, S., Carvalho-Silva, D., Clapham, P., Coates, G., Fitzgerald, S., et al. (2015) · Nucleic Acids Research · doi:10.1093/nar/gku1010 · Cited by 1,115 · see citing works
Biology and conservation of wild felids
(2011) · Choice Reviews Online · doi:10.5860/choice.48-3867 · Cited by 1,034 · see citing works
GNU Parallel: The Command-Line Power Tool.
Tange, O. (2011) · Cited by 934 · see citing works
Improved pairwise alignment of genomic dna
Harris, R. S. (2007) · Cited by 903 · see citing works
An algorithm for progressive multiple alignment of sequences with insertions
Löytynoja, A., & Goldman, N. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0409137102 · Cited by 885 · see citing works
Genetic Basis for Species Vulnerability in the Cheetah
O’Brien, S. J., Roelke, M. E., Marker, L. L., Newman, A., Winkler, C. A., Meltzer, D. G. A., Colly, L., Evermann, J. F., Bush, Μ., & Wildt, D. E. (1985) · Science · doi:10.1126/science.2983425 · Cited by 867 · see citing works
Self-citationPersonalized copy number and segmental duplication maps using next-generation sequencing
Alkan, C., Kidd, J. M., Marques-Bonet, T., Aksay, G., Antonacci, F., Hormozdiari, F., Kitzman, J. O., Baker, C., Malig, M., Mutlu, O., et al. (2009) · Nature Genetics · doi:10.1038/ng.437 · Cited by 748 · see citing works
The Late Miocene Radiation of Modern Felidae: A Genetic Assessment
Johnson, W. E., Eduardo Eizirik, C., Pecon‐Slattery, J., Murphy, W. J., Antunes, A., Teeling, E. C., & O’Brien, S. J. (2006) · Science · doi:10.1126/science.1122277 · Cited by 735 · see citing works
Self-citationParaAT: A parallel tool for constructing multiple protein-coding DNA alignments
Zhang, Z., Xiao, J., Wu, J., Zhang, H., Liu, G., Wang, X., & Dai, L. (2012) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2012.02.101 · Cited by 620 · see citing works
Dynamics of Mammalian Chromosome Evolution Inferred from Multispecies Comparative Maps
Murphy, W. J., Larkin, D. M., der Wind, A. E.-V., Bourque, G., Tesler, G., Auvil, L. S., Beever, J. E., Chowdhary, B. P., Galibert, F., Gatzke, L., et al. (2005) · Science · doi:10.1126/science.1111387 · Cited by 594 · see citing works
Self-citationTreeFam: a curated database of phylogenetic trees of animal gene families
Li, H. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkj118 · Cited by 523 · see citing works
snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs
Lestrade, L. (2005) · Nucleic Acids Research · doi:10.1093/nar/gkj002 · Cited by 504 · see citing works
Mountain gorilla genomes reveal the impact of long-term population decline and inbreeding
Xue, Y., Prado-Martinez, J., Sudmant, P. H., Narasimhan, V., Ayub, Q., Szpak, M., Frandsen, P., Chen, Y., Yngvadottir, B., Cooper, D. N., et al. (2015) · Science · doi:10.1126/science.aaa3952 · Cited by 473 · see citing works
Self-citationKeverne, E. B. (1999) · Science · doi:10.1126/science.286.5440.716 · Cited by 457 · see citing works
Estimation of genomic characteristics by analyzing k-mer frequency in de novo genome projectsPreprint
Liu, B., Shi, Y., Yuan, J., Hu, X., Zhang, H., Li, N., Li, Z., Chen, Y., Mu, D., & Fan, W. (2013) · arXiv (Cornell University) · doi:10.4230/lipics.cpm.2021.16 · Cited by 447 · see citing works
Nielsen, R., Korneliussen, T., Albrechtsen, A., Li, Y., & Wang, J. (2012) · PLoS ONE · doi:10.1371/journal.pone.0037558 · Cited by 424 · cited 2× · see citing works
“The method described in [65] is a robust and high-precision method for SNV calling at low depth based on the methodology of the site frequency spectrum (SFS).”
MethodSelf-citationThe Cheetah Is Depauperate in Genetic Variation
O’Brien, S. J., Wildt, D. E., Goldman, D. A., Merril, C. R., & Bush, Μ. (1983) · Science · doi:10.1126/science.221.4609.459 · Cited by 408 · see citing works
Self-citationReproductive and genetic consequences of founding isolated lion populations
Wildt, D. E., Bush, Μ., Goodrowe, K. L., Packer, C., Pusey, A. E., Brown, J. L., Joslin, P., & O’Brien, S. J. (1987) · Nature · doi:10.1038/329328a0 · Cited by 401 · see citing works
Self-citationGenome rearrangements in mammalian evolution: lessons from human and mouse genomes
Pevzner, P., & Tesler, G. (2003) · Genome Research · doi:10.1101/gr.757503 · Cited by 369 · see citing works
Initial sequence and comparative analysis of the cat genome
Pontius, J. U., Mullikin, J. C., Smith, D. R., Agencourt Sequencing Team, Lindblad-Toh, K., Gnerre, S., Clamp, M., Chang, J., Stephens, R., Neelam, B., et al. (2007) · Genome Research · doi:10.1101/gr.6380007 · Cited by 368 · see citing works
Self-citationEcological and Genetic Factors in Conservation: a Cautionary Tale
Caro, T. M., & Laurenson, M. K. (1994) · Science · doi:10.1126/science.8290956 · Cited by 367 · see citing works
Montague, M. J., Li, G., Gandolfi, B., Khan, R., Aken, B. L., Searle, S. M. J., Minx, P., Hillier, L. W., Koboldt, D. C., Davis, B. W., et al. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1410083111 · Cited by 340 · see citing works
Self-citationBosse, M., Megens, H., Madsen, O., Paudel, Y., Frantz, L., Schook, L. B., Crooijmans, R. P. M. A., & Groenen, M. A. M. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1003100 · Cited by 327 · see citing works
Genomic ancestry of the American puma (Puma concolor)
Culver, M. (2000) · Journal of Heredity · doi:10.1093/jhered/91.3.186 · Cited by 324 · see citing works
The tiger genome and comparative analysis with lion and snow leopard genomes
Cho, Y. S., Hu, L., Hou, H., Lee, H., Xu, J., Kwon, S., Oh, S., Kim, H.-M., Jho, S., Kim, S., et al. (2013) · Nature Communications · doi:10.1038/ncomms3433 · Cited by 312 · see citing works
Self-citationUnique Seminal Quality in the South African Cheetah and a Comparative Evaluation in the Domestic Cat
Wildt, D. E., Bush, M., Howard, J., O’Brien, S. J., Meltzer, D. G. A., van Dyk, A., Ebedes, H., & Brand, D. J. (1983) · Biology of Reproduction · doi:10.1095/biolreprod29.4.1019 · Cited by 284 · see citing works
Self-citationmrsFAST: a cache-oblivious algorithm for short-read mapping
Hach, F., Hormozdiari, F., Alkan, C., Hormozdiari, F., Birol, İ., Eichler, E. E., & Şahinalp, S. C. (2010) · Nature Methods · doi:10.1038/nmeth0810-576 · Cited by 274 · see citing works
Fletcher, W., & Yang, Z. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq115 · Cited by 265 · see citing works
Cactus: Algorithms for genome multiple sequence alignment
Paten, B., Earl, D., Nguyen, N., Diekhans, M., Zerbino, D., & Haussler, D. (2011) · Genome Research · doi:10.1101/gr.123356.111 · Cited by 243 · see citing works
Self-citationDating the genetic bottleneck of the African cheetah.
Menotti-Raymond, M. A., & O’Brien, S. J. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.8.3172 · Cited by 227 · see citing works
Self-citationA-Kinase Anchoring Protein 4 Binding Proteins in the Fibrous Sheath of the Sperm Flagellum
Brown, P. R., Miki, K., Harper, D. B., & Eddy, E. M. (2003) · Biology of Reproduction · doi:10.1095/biolreprod.102.013466 · Cited by 196 · see citing works
Efficient algorithms for multichromosomal genome rearrangements
Tesler, G. (2002) · Journal of Computer and System Sciences · doi:10.1016/s0022-0000(02)00011-9 · Cited by 165 · see citing works
Analytical DNA Fingerprinting in Lions: Parentage, Genetic Diversity, and Kinship
Gilbert, D. A., Packer, C., Pusey, A. E., Stephens, J. C., & O’Brien, S. J. (1991) · Journal of Heredity · doi:10.1093/oxfordjournals.jhered.a111107 · Cited by 156 · see citing works
Self-citationCheetah Paradigm Revisited: MHC Diversity in the World's Largest Free-Ranging Population
Castro-Prieto, A., Wachter, B., & Sommer, S. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq330 · Cited by 141 · see citing works
Evolution of the extinct Sabretooths and the American cheetah-like cat
Barnett, R., Barnes, I., Phillips, M. J., Martin, L. D., Harington, C. R., Leonard, J. A., & Cooper, A. (2005) · Current Biology · doi:10.1016/j.cub.2005.07.052 · Cited by 125 · see citing works
Merola, M. (1994) · Conservation Biology · doi:10.1046/j.1523-1739.1994.08040961.x · Cited by 116 · see citing works
Genomic Microsatellites as Evolutionary Chronometers: A Test in Wild CatsPreprint
Driscoll, C. A., Menotti-Raymond, M. A., Nelson, G. W., Goldstein, D. B., & O’Brien, S. J. (2002) · Genome Research · doi:10.1101/gr.185702 · Cited by 110 · see citing works
Self-citationReduced heterozygosity impairs sperm quality in endangered mammals
Fitzpatrick, J. L., & Evans, J. P. (2009) · Biology Letters · doi:10.1098/rsbl.2008.0734 · Cited by 105 · see citing works
Charruau, P., Fernandes, C., Orozco‐terWengel, P., Peters, J., Hunter, L., Ziaie, H., Jourabchian, A., Jowkar, H., Schaller, G., Ostrowski, S., et al. (2011) · Molecular Ecology · doi:10.1111/j.1365-294x.2010.04986.x · Cited by 103 · see citing works
Cactus Graphs for Genome Comparisons
Paten, B., Diekhans, M., Earl, D., John, J. S., Ma, J., Suh, B., & Haussler, D. (2011) · Journal of Computational Biology · doi:10.1089/cmb.2010.0252 · Cited by 102 · see citing works
Self-citationComparative Genome Organization of Human, Murine, and Feline MHC Class II RegionPreprint
Yuhki, N., Beck, T. W., Stephens, R. M., Nishigaki, Y., Newmann, K., & O’Brien, S. J. (2003) · Genome Research · doi:10.1101/gr.976103 · Cited by 101 · see citing works
Self-citationHeeney, J. L., Evermann, J. F., McKeirnan, A. J., Marker‐Kraus, L., Roelke, M. E., Bush, Μ., Wildt, D. E., Meltzer, D. G. A., Colly, L., & Lukas, J. (1990) · Journal of Virology · doi:10.1128/jvi.64.5.1964-1972.1990 · Cited by 99 · see citing works
Self-citationMiki, K., & Eddy, E. M. (1998) · Journal of Biological Chemistry · doi:10.1074/jbc.273.51.34384 · Cited by 96 · see citing works
Phylogeny and evolution of cats (Felidae)
Werdelin, L., Yamaguchi, N., Johnson, W. E., & O’Brien, S. J. (2010) · Cited by 92 · see citing works
Self-citationOrthology Detection Combining Clustering and Synteny for Very Large Datasets
Lechner, M., Hernández-Rosales, M., Doerr, D., Wieseke, N., Thévenin, A., Stoye, J., Hartmann, R. K., Prohaska, S. J., & Stadler, P. F. (2014) · PLoS ONE · doi:10.1371/journal.pone.0105015 · Cited by 91 · see citing works
Captive breeding of the cheetah ( Acinonyx jubatus ) in North American zoos (1871–1986)
Marker, L. L., & O’Brien, S. J. (1989) · Zoo Biology · doi:10.1002/zoo.1430080103 · Cited by 78 · see citing works
Self-citationComparative Genomic Structure of Human, Dog, and Cat MHC: HLA, DLA, and FLA
Yuhki, N., Beck, T. W., Stephens, R. M., Neelam, B. A., & O’Brien, S. J. (2007) · Journal of Heredity · doi:10.1093/jhered/esm056 · Cited by 75 · see citing works
Self-citationEjaculate traits in the Namibian cheetah (Acinonyx jubatus): influence of age, season and captivity
Crosier, A. E., Marker, L. L., Howard, J., Pukazhenthi, B. S., Henghali, J. N., & Wildt, D. E. (2007) · Reproduction Fertility and Development · doi:10.1071/rd06057 · Cited by 74 · see citing works
Self-citationO’Brien, S. J., & Johnson, W. E. (2005) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev.genom.6.080604.162151 · Cited by 62 · see citing works
Self-citationBiochemical genetic variation in geographic isolates of African and Asiatic lions.
O’Brien, S. J. (1987) · NSUWorks (Nova Southeastern University) · Cited by 56 · see citing works
Self-citationPathogen-Driven Selection in the Human Genome
Cagliani, R., & Sironi, M. (2013) · International Journal of Evolutionary Biology · doi:10.1155/2013/204240 · Cited by 54 · see citing works
Origin and evolution of a major feline satellite DNA
Fanning, T. G. (1987) · Journal of Molecular Biology · doi:10.1016/0022-2836(87)90469-4 · Cited by 49 · see citing works
May, R. M. (1995) · Nature · doi:10.1038/374309a0 · Cited by 44 · see citing works
The role of A-kinase anchoring proteins (AKaps) in regulating sperm function.
Dw, C., & Ae, N. (2007) · PubMed · Cited by 38 · see citing works
Genetic variation in Asiatic lions and Indian tigers
Shankaranarayanan, P., Banerjee, M., Kacker, R. K., Aggarwal, R. K., & Singh, L. (1997) · Electrophoresis · doi:10.1002/elps.1150180938 · Cited by 36 · see citing works
Annotated features of domestic cat – Felis catus genome
Tamazian, G., Simonov, S., Dobrynin, P. V., Makunin, A., Logachev, A., Komissarov, A. S., Shevchenko, A. K., Brukhin, V. B., Cherkasov, N., Svitin, A., et al. (2014) · GigaScience · doi:10.1186/2047-217x-3-13 · Cited by 36 · see citing works
Self-citationThe big cats : the paintings of Guy Coheleach
Coheleach, G., Neff, N. A., & Caras, R. A. (1982) · Medical Entomology and Zoology · Cited by 34 · see citing works
Control of the False Discovery Rate Applied to the Detection of Positively Selected Amino Acid Sites
Guindon, S. (2006) · Molecular Biology and Evolution · doi:10.1093/molbev/msj095 · Cited by 28 · see citing works
Chromosomal localization of the major satellite DNA family (FA-SAT) in the domestic cat
Santos, S., Chaves, R., & Guedes‐Pinto, H. (2004) · Cytogenetic and Genome Research · doi:10.1159/000079581 · Cited by 20 · see citing works
Intersection of Population Genetics and Species Conservation
O’Brien, S. J. (1998) · Evolutionary Biology · doi:10.1007/978-1-4899-1751-5_3 · Cited by 7 · see citing works
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Understanding Inbreeding Depression, Purging, and Genetic Rescue
Hedrick, P. W., & García‐Dorado, A. (2016) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2016.09.005 · Cited by 671 · see citing works
Progressive Cactus is a multiple-genome aligner for the thousand-genome era
Armstrong, J., Hickey, G., Diekhans, M., Fiddes, I. T., Novak, A. M., Deran, A., Fang, Q., Xie, D., Feng, S., Stiller, J., et al. (2020) · Nature · doi:10.1038/s41586-020-2871-y · Cited by 586 · see citing works
Self-citationGenomics advances the study of inbreeding depression in the wild
Kardos, M. D., Taylor, H. R., Ellegren, H., Luikart, G., & Allendorf, F. W. (2016) · Evolutionary Applications · doi:10.1111/eva.12414 · Cited by 390 · see citing works
Genetics and the conservation of natural populations: allozymes to genomes
Allendorf, F. W. (2016) · Molecular Ecology · doi:10.1111/mec.13948 · Cited by 388 · see citing works
Quantifying Temporal Genomic Erosion in Endangered Species
Díez-del-Molino, D., Sánchez-Barreiro, F., Barnes, I., Gilbert, M. T. P., & Dalén, L. (2018) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2017.12.002 · Cited by 258 · see citing works
Introduction to Population Biology
Neal, D. (2003) · Cambridge University Press eBooks · doi:10.1017/9781139107976 · Cited by 234 · see citing works
Abascal, F., Corvelo, A., Cruz, F., Villanueva‐Cañas, J. L., Vlasova, A. V., Marcet‐Houben, M., Martínez‐Cruz, B., Cheng, J. Y., Prieto, P., Quesada, V., et al. (2016) · Genome biology · doi:10.1186/s13059-016-1090-1 · Cited by 211 · see citing works
Li, G., Figueiró, H. V., Eduardo Eizirik, C., & Murphy, W. J. (2019) · Molecular Biology and Evolution · doi:10.1093/molbev/msz139 · Cited by 154 · see citing works
Saremi, N. F., Supple, M. A., Byrne, A., Cahill, J. A., Coutinho, L. L., Dalén, L., Figueiró, H. V., Johnson, W. E., Milne, H. J., O’Brien, S. J., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12741-1 · Cited by 141 · see citing works
Self-citationComparison of carnivore, omnivore, and herbivore mammalian genomes with a new leopard assembly
Kim, S., Cho, Y. S., Kim, H., Chung, O., Kim, H., Jho, S., Seomun, H., Kim, J., Bang, W. Y., Kim, C., et al. (2016) · Genome biology · doi:10.1186/s13059-016-1071-4 · Cited by 140 · see citing works
Self-citationGenomic effects of population collapse in a critically endangered ironwood tree Ostrya rehderiana
Yang, Y. P., Ma, T., Wang, Z., Lu, Z., Li, Y., Fu, C., Chen, X., Zhao, M., Olson, M. S., & Liu, J. (2018) · Nature Communications · doi:10.1038/s41467-018-07913-4 · Cited by 135 · see citing works
Population Genomics: Advancing Understanding of Nature
Luikart, G., Kardos, M. D., Hand, B. K., Rajora, O. P., Aitken, S. N., & Hohenlohe, P. A. (2018) · Population genomics · doi:10.1007/13836_2018_60 · Cited by 128 · see citing works
Chromosome assembly of large and complex genomes using multiple referencesPreprint
Kolmogorov, M., Armstrong, J. C., Raney, B. J., Streeter, I., Dunn, M., Yang, F., Odom, D. T., Flicek, P., Keane, T., Thybert, D., et al. (2018) · Genome Research · doi:10.1101/gr.236273.118 · Cited by 123 · see citing works
Muñoz‐Fuentes, V., Cacheiro, P., Meehan, T. F., Aguilar‐Pimentel, J. A., Brown, S. D. M., Flenniken, A. M., Flicek, P., Galli, A., Mashhadi, H. H., de Angelis, M. H., et al. (2018) · Conservation Genetics · doi:10.1007/s10592-018-1072-9 · Cited by 114 · see citing works
Hu, J., Hao, Z.-Q., Frantz, L., Wu, S., Wu, C., Jiang, Y.-F., Wu, H., Kuang, W., Li, H., Zhang, Y., et al. (2020) · National Science Review · doi:10.1093/nsr/nwaa031 · Cited by 100 · see citing works
Westbury, M. V., Hartmann, S. A., Barlow, A., Wiesel, I., Leo, V., Welch, R. J., Parker, D. M., Sicks, F., Ludwig, A., Dalén, L., et al. (2018) · Molecular Biology and Evolution · doi:10.1093/molbev/msy037 · Cited by 95 · see citing works
Roycroft, E., MacDonald, A. J., Moritz, C. C., Moussalli, A., Miguez, R. P., & Rowe, K. C. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2021390118 · Cited by 94 · see citing works
Genome sequencing and conservation genomics in the Scandinavian wolverine population
Ekblom, R., Brechlin, B. H. E., Persson, J., Smeds, L., Johansson, M., Magnusson, J. J., Flagstad, Ø., & Ellegren, H. (2018) · Conservation Biology · doi:10.1111/cobi.13157 · Cited by 88 · see citing works
Beichman, A. C., Koepfli, K., Li, G., Murphy, W. J., Dobrynin, P., Kliver, S. F., Tinker, M. T., Murray, M. J., Johnson, J., Lindblad‐Toh, K., et al. (2019) · Molecular Biology and Evolution · doi:10.1093/molbev/msz101 · Cited by 78 · see citing works
Self-citationEndangered island endemic plants have vulnerable genomes
Hamabata, T., Kinoshita, G., Kurita, K., Cao, P.-L., Itô, M., Murata, J., Komaki, Y., Isagi, Y., & Makino, T. T. (2019) · Communications Biology · doi:10.1038/s42003-019-0490-7 · Cited by 67 · see citing works
LoPresti, M., Beck, D. B., Duggal, P., Cummings, D. A. T., & Solomon, B. D. (2020) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2020.08.007 · Cited by 65 · see citing works
Pečnerová, P., Garcia‐Erill, G., Liu, X., Nursyifa, C., Waples, R. K., Santander, C. G., Quinn, L. J. E., Frandsen, P., Meisner, J., Stæger, F. F., et al. (2021) · Current Biology · doi:10.1016/j.cub.2021.01.064 · Cited by 65 · see citing works
Rabanus‐Wallace, M. T., Wooller, M. J., Zazula, G. D., Shute, E., Jahren, A. H., Kosintsev, P. A., Burns, J. A., Breen, J., Llamas, B., & Cooper, A. (2017) · Nature Ecology & Evolution · doi:10.1038/s41559-017-0125 · Cited by 60 · see citing works
Bentley, B. P., Carrasco-Valenzuela, T., Ramos, E. K. S., Pawar, H., Arantes, L. S., Alexander, A. M., Banerjee, S. M., Masterson, P., Kuhlwilm, M., Pippel, M., et al. (2023) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2201076120 · Cited by 57 · see citing works
Self-citationBarnett, R., Westbury, M. V., Sandoval‐Velasco, M., Vieira, F. G., Jeon, S., Zazula, G. D., Martin, M. D., Ho, S. Y. W., Mather, N., Gopalakrishnan, S., et al. (2020) · Current Biology · doi:10.1016/j.cub.2020.09.051 · Cited by 51 · see citing works
Self-citationEvaluating recovery potential of the northern white rhinoceros from cryopreserved somatic cells
Tunstall, T., Kock, R., Vahala, J., Diekhans, M., Fiddes, I., Armstrong, J., Paten, B., Ryder, O. A., & Steiner, C. C. (2018) · Genome Research · doi:10.1101/gr.227603.117 · Cited by 50 · see citing works
Self-citationBig Cat Coalitions: A Comparative Analysis of Regional Brain Volumes in Felidae
Sakai, S. T., Arsznov, B. M., Hristova, A. E., Yoon, E. J., & Lundrigan, B. L. (2016) · Frontiers in Neuroanatomy · doi:10.3389/fnana.2016.00099 · Cited by 49 · see citing works
Armstrong, E. E., Taylor, R. W., Miller, D. E., Kaelin, C. B., Barsh, G. S., Hadly, E. A., & Petrov, D. A. (2020) · BMC Biology · doi:10.1186/s12915-019-0734-5 · Cited by 49 · see citing works
Rougemont, Q., Moore, J., Leroy, T., Normandeau, É., Rondeau, E. B., Withler, R. E., Doornik, D. M. V., Crane, P. A., Naish, K. A., Garza, J. C., et al. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1008348 · Cited by 45 · see citing works
Prost, S., Machado, A. P., Zumbroich, J., Preier, L., Mahtani‐Williams, S., Meißner, R., Guschanski, K., Brealey, J. C., Fernandes, C. R., Vercammen, P., et al. (2022) · Molecular Ecology · doi:10.1111/mec.16577 · Cited by 43 · see citing works
The Muskox Lost a Substantial Part of Its Genetic Diversity on Its Long Road to Greenland
Hansen, C. C. R., Hvilsom, C., Schmidt, N. M., Aastrup, P., Van Coeverden de Groot, P. J., Siegismund, H. R., & Heller, R. (2018) · Current Biology · doi:10.1016/j.cub.2018.10.054 · Cited by 42 · see citing works
Chen, Z., Ai, F., Zhang, J., Ma, X., Yang, W., Wang, W., Su, Y., Wang, M., Yang, Y. P., Mao, K., et al. (2020) · The Plant Journal · doi:10.1111/tpj.14744 · Cited by 41 · see citing works
Genetic evaluation of the Iberian lynx ex situ conservation programme
Kleinman‐Ruiz, D., Soriano, L., Casas‐Marce, M., Szychta, C., Sánchez, I., Fernández, J., & Godoy, J. A. (2019) · Heredity · doi:10.1038/s41437-019-0217-z · Cited by 39 · see citing works
Genetic Drift and Effective Population Size
Neal, D. (2018) · Cambridge University Press eBooks · doi:10.1017/9781139107976.012 · Cited by 39 · see citing works
Wang, Q., Lan, T., Li, H., Sahu, S. K., Shi, M., Zhu, Y., Han, L., Yang, S., Li, Q., Zhang, L., et al. (2022) · Communications Biology · doi:10.1038/s42003-022-03757-3 · Cited by 38 · see citing works
Gottscho, A. D., Wood, D. A., Vandergast, A. G., Lemos‐Espinal, J. A., Gatesy, J., & Reeder, T. W. (2016) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2016.09.008 · Cited by 38 · see citing works
Bredemeyer, K. R., Hillier, L., Harris, A. J., Hughes, G. M., Foley, N. M., Lawless, C., Carroll, R. A., Storer, J. M., Batzer, M. A., Rice, E. S., et al. (2023) · Nature Genetics · doi:10.1038/s41588-023-01548-y · Cited by 37 · see citing works
Self-citationConservation Genetics of the Cheetah: Lessons Learned and New Opportunities
O’Brien, S. J., Johnson, W. E., Driscoll, C. A., Dobrynin, P. V., & Marker, L. L. (2017) · Journal of Heredity · doi:10.1093/jhered/esx047 · Cited by 37 · see citing works
Self-citationThe value of new genome references
Worley, K. C., Richards, S., & Rogers, J. (2016) · Experimental Cell Research · doi:10.1016/j.yexcr.2016.12.014 · Cited by 36 · see citing works
Recent inner ear specialization for high-speed hunting in cheetahs
Grohé, C., Lee, B., & Flynn, J. J. (2018) · Scientific Reports · doi:10.1038/s41598-018-20198-3 · Cited by 35 · see citing works
Liu, L., Bosse, M., Megens, H., de Visser, M. C., Groenen, M. A. M., & Madsen, O. (2020) · Evolutionary Applications · doi:10.1111/eva.13150 · Cited by 33 · see citing works
Humble, E., Dobrynin, P. V., Senn, H., Chuven, J., Scott, A. F., Mohr, D. W., Dudchenko, O., Omer, A. D., Colaric, Z., Aiden, E. L., et al. (2020) · Molecular Ecology Resources · doi:10.1111/1755-0998.13181 · Cited by 32 · see citing works
Self-citationKrasheninnikova, K., Diekhans, M., Armstrong, J., Dievskii, A., Paten, B., & O'Brien, S. (2020) · GigaScience · doi:10.1093/gigascience/giaa047 · Cited by 30 · see citing works
Self-citationTerrell, K. A., Crosier, A. E., Wildt, D. E., O’Brien, S. J., Anthony, N. M., Marker, L. L., & Johnson, W. E. (2016) · Biological Conservation · doi:10.1016/j.biocon.2016.05.034 · Cited by 30 · see citing works
Self-citationChromosome-Level Genome Assemblies Expand Capabilities of Genomics for Conservation Biology
Totikov, A., Tomarovsky, A. A., Prokopov, D., Yakupova, A. R., Bulyonkova, T., Derežanin, L., Рассказов, Д. А., Wolfsberger, W., Koepfli, K., Oleksyk, T. K., et al. (2021) · Genes · doi:10.3390/genes12091336 · Cited by 29 · see citing works
Self-citationConservation of chromatin conformation in carnivores
Corbo, M., Damas, J., Bursell, M. G., & Lewin, H. A. (2022) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2120555119 · Cited by 28 · see citing works
Zhang, L., Lan, T., Lin, C., Fu, W., Yuan, Y., Lin, K., Li, H., Sahu, S. K., Liu, Z., Chen, D., et al. (2022) · Molecular Ecology Resources · doi:10.1111/1755-0998.13669 · Cited by 28 · see citing works
Hawkins, M. T. R., Culligan, R. R., Frasier, C. L., Dikow, R. B., Hagenson, R. A., Lei, R., & Louis, E. E. (2018) · BMC Genomics · doi:10.1186/s12864-018-4841-4 · Cited by 27 · see citing works
Genomic diversity and geographical structure of the Pyrenean desman
Querejeta, M., González‐Esteban, J., Gómez, A., Fernández‐González, Á., Aymerich, P., Gosálbez, J., Escoda, L., Igea, J., & Castresana, J. (2016) · Conservation Genetics · doi:10.1007/s10592-016-0865-y · Cited by 26 · see citing works
Draft genome of the Marco Polo Sheep (Ovis ammon polii)
Yang, Y. P., Wang, Y., Zhao, Y., Zhang, X., Li, R., Chen, L., Zhang, G., Jiang, Y., Qiu, Q., Wang, W., et al. (2017) · GigaScience · doi:10.1093/gigascience/gix106 · Cited by 25 · see citing works
Self-citationCost-effective assembly of the African wild dog (Lycaon pictus) genome using linked reads
Armstrong, E. E., Taylor, R. W., Prost, S., Blinston, P., van der Meer, E., Madzikanda, H., Mufute, O., Mandisodza‐Chikerema, R. L., Stuelpnagel, J., Sillero‐Zubiri, C., et al. (2018) · GigaScience · doi:10.1093/gigascience/giy124 · Cited by 24 · see citing works
Yusoff, A. M., Tan, T. K., Hari, R., Koepfli, K., Wee, W. Y., Antunes, A., Sitam, F. T., Rovie‐Ryan, J. J., Karuppannan, K. V., Wong, G. J., et al. (2016) · Scientific Reports · doi:10.1038/srep28199 · Cited by 23 · see citing works
Self-citationKuang, W., Hu, J., Wu, H., Fen, X., Dai, Q., Fu, Q., Xiao, W., Frantz, L., Roos, C., Nadler, T., et al. (2020) · Frontiers in Genetics · doi:10.3389/fgene.2020.615926 · Cited by 23 · see citing works
Self-citationCrossman, C. A., Fontaine, M. C., & Frasier, T. R. (2023) · Molecular Ecology · doi:10.1111/mec.17099 · Cited by 22 · see citing works
Comparative analysis of corrected tiger genome provides clues to its neuronal evolution
Mittal, P., Jaiswal, S. K., Vijay, N., Saxena, R., & Sharma, V. K. (2019) · Scientific Reports · doi:10.1038/s41598-019-54838-z · Cited by 22 · see citing works
Estimates of genetic load in small populations suggest extensive purging of deleterious allelesPreprint
van der Valk, T., de Manuel, M., Guschanski, K., & Marquès‐Bonet, T. (2021) · Edinburgh Research Explorer (University of Edinburgh) · doi:10.1101/696831 · Cited by 21 · see citing works
Self-citationRougemont, Q., Moore, J., Leroy, T., Normandeau, É., Rondeau, E. B., Withler, R. E., Doornik, D. M. V., Crane, P. A., Naish, K. A., Garza, J. C., et al. (2021) · PLoS Genetics · doi:10.1371/journal.pgen.1009397 · Cited by 21 · see citing works
Conservation genomics of the critically endangered Chinese pangolin
Wei, S., Fan, H., Zhou, W., Huang, G., Hua, Y., Wu, S., Wei, X. L., Chen, Y., Tan, X., & Wei, F. (2024) · Science China Life Sciences · doi:10.1007/s11427-023-2540-y · Cited by 20 · see citing works
Feyrer, L., Bentzen, P., Whitehead, H., Paterson, I. G., & Einfeldt, A. L. (2019) · Ecology and Evolution · doi:10.1002/ece3.5813 · Cited by 20 · see citing works
What Can Genome Sequence Data Reveal About Population Viability?
Kardos, M. D., Keller, L. F., & Funk, W. C. (2024) · Molecular Ecology · doi:10.1111/mec.17608 · Cited by 20 · see citing works
New high copy tandem repeat in the content of the chicken W chromosome
Komissarov, A. S., Galkina, S., Koshel, E. I., Kulak, M., Dyomin, A. G., O’Brien, S. J., Gaginskaya, E. R., & Saifitdinova, A. F. (2017) · Chromosoma · doi:10.1007/s00412-017-0646-5 · Cited by 18 · see citing works
Self-citationThe chromosome-scale genome of the raccoon dog: Insights into its evolutionary characteristics
Lan, T., Li, H., Yang, S., Shi, M., Han, L., Sahu, S. K., Lu, Y., Wang, J., Zhou, M., Liu, H., et al. (2022) · iScience · doi:10.1016/j.isci.2022.105117 · Cited by 18 · see citing works
Self-citationHow genomic insights into the evolutionary history of clouded leopards inform their conservation
Yuan, J., Gui-qiang, W., Zhao, L., Kitchener, A. C., Ting, S., Chen, W., Huang, C., Wang, C., Xu, X. J., Wang, J., et al. (2023) · Science Advances · doi:10.1126/sciadv.adh9143 · Cited by 18 · see citing works
Self-citationCopy number variants and fixed duplications among 198 rhesus macaques (Macaca mulatta)
Brasó‐Vives, M., Povolotskaya, I., Hartasánchez, D. A., Farré, X., Fernández-Callejo, M., Raveendran, M., Harris, R. A., Rosene, D. L., Lorente-Galdós, B., Navarro, A., et al. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1008742 · Cited by 18 · see citing works
Schwensow, N., Castro-Prieto, A., Wachter, B., & Sommer, S. (2019) · Conservation Genetics · doi:10.1007/s10592-019-01143-x · Cited by 18 · see citing works
Lan, T., Li, H., Liu, B., Shi, M., Tian, Y., Sahu, S. K., Cui, L., Dussex, N., Liu, D., Ma, Y., et al. (2024) · Journal of genetics and genomics/Journal of Genetics and Genomics · doi:10.1016/j.jgg.2024.12.004 · Cited by 17 · see citing works
Self-citationGrigorev, K. A., Kliver, S. F., Dobrynin, P. V., Komissarov, A. S., Wolfsberger, W., Krasheninnikova, K., Afanador-Hernández, Y. M., Brandt, A. L., Paulino, L. A., León, R. C., et al. (2018) · GigaScience · doi:10.1093/gigascience/giy025 · Cited by 17 · see citing works
Self-citationYakupova, A. R., Tomarovsky, A. A., Totikov, A., Beklemisheva, V. R., Logacheva, M. D., Perelman, P. L., Komissarov, A. S., Dobrynin, P. V., Krasheninnikova, K., Tamazian, G., et al. (2023) · Genes · doi:10.3390/genes14030619 · Cited by 17 · see citing works
Self-citationConservation Genetics of the Cheetah: Genetic History and Implications for Conservation
Schmidt‐Küntzel, A., Dalton, D. L., Menotti-Raymond, M. A., Fabiano, E. C., Charruau, P., Johnson, W. E., Sommer, S., Marker, L. L., Kotzé, A., & O’Brien, S. J. (2018) · Elsevier eBooks · doi:10.1016/b978-0-12-804088-1.00006-x · Cited by 17 · see citing works
Self-citationFull disclosure: Genome assembly is still hard
Richards, S. (2018) · PLoS Biology · doi:10.1371/journal.pbio.2005894 · Cited by 17 · see citing works
Comparative Genomics of the Major Histocompatibility Complex (MHC) of Felids
Plášil, M., Futas, J., Jelinek, A. L., Burger, P. A., & Hořín, P. (2022) · Frontiers in Genetics · doi:10.3389/fgene.2022.829891 · Cited by 17 · see citing works
Population size history from short genomic scaffolds: how short is too short?Preprint
Gower, G., Tuke, J., Rohrlach, A. B., Soubrier, J., Llamas, B., Bean, N. G., & Cooper, A. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/382036 · Cited by 17 · see citing works
Give and take: Effects of genetic admixture on mutation load in endangered Florida panthers
Ochoa, A., Onorato, D. P., Parker, M. R., Culver, M., & Fitak, R. R. (2022) · Journal of Heredity · doi:10.1093/jhered/esac037 · Cited by 16 · see citing works
Janečka, J. E., Hacker, C., Broderick, J. C., Pulugulla, S. H., Auron, P. E., Ringling, M., Nelson, B., Munkhtsog, B., Hussain, S., Davis, B. W., et al. (2020) · Springer eBooks · doi:10.1007/978-3-030-33334-8_5 · Cited by 15 · see citing works
Exceedingly low genetic diversity in snow leopards due to persistently small population size
Solari, K. A., Morgan, S., Poyarkov, A. D., Weckworth, B., Samelius, G., Sharma, K., Ostrowski, S., Ramakrishnan, U., Kubanychbekov, Z., Kachel, S. M., et al. (2025) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2502584122 · Cited by 15 · see citing works
Li, A., Yang, Q., Li, R., Dai, X., Cai, K., Lei, Y., Jia, K., Jiang, Y., & Zan, L. (2022) · Molecular Ecology · doi:10.1111/mec.16483 · Cited by 15 · see citing works
Cotts, L., Slifkin, J. P., Moratelli, R., Gonçalves, L., & Rocha-Barbosa, O. (2023) · Zoologia (Curitiba) · doi:10.1590/s1984-4689.v40.e22034 · Cited by 12 · see citing works
Campana, M. G., Corvelo, A., Shelton, J., Callicrate, T., Bunting, K. L., Riley-Gillis, B. M., Wos, F., DeGrazia, J., Jarvis, E. D., & Fleischer, R. C. (2019) · Journal of Heredity · doi:10.1093/jhered/esz057 · Cited by 15 · see citing works
Derežanin, L., Blažytė, A., Dobrynin, P. V., Duchêne, D. A., Grau, J. H., Jeon, S., Kliver, S. F., Koepfli, K., Meneghini, D., Preick, M., et al. (2022) · Molecular Ecology · doi:10.1111/mec.16443 · Cited by 14 · see citing works
Self-citationViļuma, A., Flagstad, Ø., Åkesson, M., Wikenros, C., Sand, H., Wabakken, P., & Ellegren, H. (2022) · Genome Research · doi:10.1101/gr.276070.121 · Cited by 14 · see citing works
Gajdárová, B., Belotti, E., Bufka, L., Volfová, J., Wölfl, S., Mináriková, T., Hollerbach, L., Duľa, M., Kleven, O., Kutal, M., et al. (2023) · Global Ecology and Conservation · doi:10.1016/j.gecco.2023.e02399 · Cited by 13 · see citing works
Lan, T., Tian, Y., Shi, M., Liu, B., Lin, Y., Xia, Y., Ma, Y., Sahu, S. K., Wang, Q., Li, J., et al. (2025) · GigaScience · doi:10.1093/gigascience/giaf003 · Cited by 13 · see citing works
Ochoa, A., Onorato, D. P., Fitak, R. R., Parker, M. R., & Culver, M. (2019) · G3 Genes Genomes Genetics · doi:10.1534/g3.119.400629 · Cited by 13 · see citing works
Genomic insights and the conservation potential of captive breeding: The case of Chinese alligator
Pan, T., Miao, J., Sun, K., Nie, H., Luscombe, N. M., Li, W., Zhang, S., Yang, L., Wang, H., Zhou, Y., et al. (2025) · Science Advances · doi:10.1126/sciadv.adm7980 · Cited by 12 · see citing works
Rai, N., Verma, S. K., Gaur, A., Iliescu, F. M., Thakur, M. K., Golla, T. R., Chandra, K., Prakash, S., Tabasum, W., Ara, S., et al. (2020) · Scientific Reports · doi:10.1038/s41598-020-60751-7 · Cited by 12 · see citing works
Comparative neocortical neuromorphology in felids: African lion, African leopard, and cheetah
Nguyen, V. T., Uchida, R., Warling, A., Sloan, L. J., Saviano, M. S., Wicinski, B. A., Hård, T., Bertelsen, M. F., Stimpson, C. D., Bitterman, K., et al. (2019) · The Journal of Comparative Neurology · doi:10.1002/cne.24823 · Cited by 11 · see citing works
Crane, N. L., Tariel-Adam, J., Caselle, J. E., Friedlander, A. M., Robertson, D. R., & Bernardi, G. (2018) · PLoS ONE · doi:10.1371/journal.pone.0198901 · Cited by 11 · see citing works
Developmental instability and phenotypic evolution in a small and isolated bear population
Loy, A., Ciucci, P., Guidarelli, G., Roccotelli, E., & Colangelo, P. (2021) · Biology Letters · doi:10.1098/rsbl.2020.0729 · Cited by 10 · see citing works
Tahoor, A., Khan, J. A., & Mahfooz, S. (2019) · Molecular Biology Reports · doi:10.1007/s11033-019-04739-1 · Cited by 10 · see citing works
Brown, A. P. C., Greenway, R., Morgan, S., Quackenbush, C. R., Giordani, L., Arias‐Rodríguez, L., Tobler, M., & Kelley, J. L. (2017) · Molecular Ecology · doi:10.1111/mec.14249 · Cited by 9 · see citing works
Samaha, G., Wade, C. M., Mazrier, H., Grueber, C. E., & Haase, B. (2021) · BMC Genomics · doi:10.1186/s12864-021-07899-2 · Cited by 9 · see citing works
Meiring, C., Schurz, H., van Helden, P. D., Hoal, E. G., Tromp, G. C., Kinnear, C. J., Kleynhans, L., Glanzmann, B., van Schalkwyk, O. L., Miller, M. A., et al. (2022) · Scientific Reports · doi:10.1038/s41598-022-19025-7 · Cited by 8 · see citing works
Kishida, T., Ohashi, M., & Komatsu, Y. (2022) · Ecological Research · doi:10.1111/1440-1703.12335 · Cited by 7 · see citing works
Zhang, L., Leonard, N., Passaro, R., Luan, M. S., Tuyen, P. V., Han, L. T. N., Cam, N. H., Vogelnest, L., Lynch, M., Fine, A. E., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-52811-7 · Cited by 7 · see citing works
BIOMARKERS OF GASTROINTESTINAL DISEASE IN CHEETAHS (ACINONYX JUBATUS)
Fox, L., Haefele, H. J., Uelmen, J. A., Hoppes, S. M., Swenson, J., Tolbert, M. K., Suchodolski, J. S., & Steiner, J. M. (2021) · Journal of Zoo and Wildlife Medicine · doi:10.1638/2021-0012 · Cited by 7 · see citing works
von Seth, J., Niemann, J., & Dalén, L. (2018) · Population genomics · doi:10.1007/13836_2018_53 · Cited by 7 · see citing works
Reproductive Physiology of the Cheetah and Assisted Reproductive Techniques
Crosier, A. E., Wachter, B., Schulman, M. L., Lüders, I., Koester, D. C., Wielebnowski, N. C., Comizzoli, P., & Marker, L. L. (2018) · Elsevier eBooks · doi:10.1016/b978-0-12-804088-1.00027-7 · Cited by 7 · see citing works
Self-citationNeal, D. (2018) · Cambridge University Press eBooks · doi:10.1017/9781139107976.009 · Cited by 7 · see citing works
Lok, S., Lau, T. N. H., Trost, B., Tong, A. H. Y., Wintle, R. F., Engstrom, M. D., Stacy, E., Waits, L. P., Scrafford, M., & Scherer, S. W. (2022) · G3 Genes|Genomes|Genetics · doi:10.1093/g3journal/jkac138 · Cited by 6 · see citing works
The brain of the North American cheetah-like cat Miracinonyx trumani
Figueirido, B., Pérez‐Ramos, A., Hotchner, A., Lovelace, D. M., Pastor, J. F., & Palmqvist, P. (2022) · iScience · doi:10.1016/j.isci.2022.105671 · Cited by 6 · see citing works
- Authors
- Dobrynin, P., Liu, S., Tamazian, G., Xiong, Z., Yurchenko, A. A., Krasheninnikova, K., Kliver, S., Schmidt-Küntzel, A., Koepfli, K.-P., Johnson, W., Kuderna, L. F. K., García-Pérez, R., Manuel, M. D., Godinez, R., Komissarov, A., Makunin, A., Brukhin, V., Qiu, W., Zhou, L., Li, F., Yi, J., Driscoll, C., Antunes, A., Oleksyk, T. K., Eizirik, E., Perelman, P., Roelke, M., Wildt, D., Diekhans, M., Marques-Bonet, T., Marker, L., Bhak, J., Wang, J., Zhang, G., & O’Brien, S. J.
- Affiliations
- St Petersburg University (RU)
- Sun Yat-sen University (CN)
- China National GeneBank (CN)
- Smithsonian Conservation Biology Institute (US)
- Consejo Superior de Investigaciones Científicas (ES)
- Harvard University (US)
- National Institutes of Health (US)
- Universidade do Porto (PT)
- Russian Academy of Sciences (RU)
- Leidos Biomedical Research Inc. (United States) (US)
- University of California, Santa Cruz (US)
- Cheetah Conservation Fund (NA)
- Ulsan National Institute of Science and Technology (KR)
- BGI Group (China) (CN)
- University of Copenhagen (DK)
- Corresponding author
- O’Brien, Stephen J.
- ORCID
- Dobrynin, Pavel
- Liu, Shiping
- Tamazian, Gaik
- Xiong, Zijun
- Yurchenko, Andrey A.
- Krasheninnikova, Ksenia
- Koepfli, Klaus-Peter
- Johnson, Warren
- Kuderna, Lukas F.K.
- García-Pérez, Raquel
- Komissarov, Aleksey
- Brukhin, Vladimir
- Zhou, Long
- Li, Fang
- Yi, Jian
- Driscoll, Carlos
- Antunes, Agostinho
- Perelman, Polina
- Roelke, Melody
- Diekhans, Mark
- Marker, Laurie
- Bhak, Jong
- Wang, Jun
- Zhang, Guojie
- O’Brien, Stephen J.
- Venue
- Genome Biology
- Published
- 2015-12
- Volume
- 16
- Issue
- 1
- Pages
- 277-277
- ISSN
- 1465-6906 (ISSN-L)
- 1474-760X
- PMC
- PMC4676127
- OpenAlex
- W2196011667
- Cited by
- 204
- References
- 95
- Citations by year
- 2026: 8 · 2025: 16 · 2024: 10 · 2023: 16 · 2022: 23 · 2021: 18 · 2020: 20 · 2019: 18 · 2018: 51 · 2017: 9 · 2016: 13
- FWCI
- 16.63
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Genome biology (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Científicas) (publishedVersion, other-oa)
- Research at the University of Copenhagen (University of Copenhagen) (publishedVersion, cc-by)
- RECERCAT (Consorci de Serveis Universitaris de Catalunya) (publishedVersion, other-oa)
- Digital Access to Scholarship at Harvard (DASH) (Harvard University) (submittedVersion, cc-by)
- NSUWorks (Nova Southeastern University) (submittedVersion, cc-by)
- DIGITAL.CSIC (Spanish National Research Council (CSIC)) (submittedVersion, cc-by)
- Repositori digital de la UPF (Universitat Pompeu Fabra) (submittedVersion, cc-by)
- Scholarworks@UNIST (Ulsan National Institute of Science and Technology) (submittedVersion)
- Figshare (cc-by)
- Funders
- Ministry of Environment
- Institució Catalana de Recerca i Estudis Avançats
- Saint Petersburg State University (1.50.1623.2013)
- Ministerio de Ciencia e Innovación (BFU2014-55090-P)
- Megagrants
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- cheetah, inbreeding depression, homozygosity, population bottleneck, non-synonymous mutations, AKAP4, sperm abnormalities, skin graft rejection, Late Pleistocene extinction, demographic history
- MeSH terms
- Animals, Cats, Acinonyx, Dogs, Multigene Family, Male, Genetic Variation, Genome, Genomics
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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