Annotated features of domestic cat - Felis catus genome

GigaScience

Volumn 3, Issue 1, 2014, Pages

  Tamazian, Gaik ^a   Simonov, Serguei ^a   Dobrynin, Pavel ^a   Makunin, Alexey ^a   Logachev, Anton ^a   Komissarov, Aleksey ^a   Shevchenko, Andrey ^a   Brukhin, Vladimir ^a   Cherkasov, Nikolay ^a   Svitin, Anton ^a   Koepfli, Klaus Peter ^a   Pontius, Joan ^a   Driscoll, Carlos A ^b   Blackistone, Kevin ^b   Barr, Cristina ^b   Goldman, David ^b   Antunes, Agostinho ^c   Quilez, Javier ^d   Lorente Galdos, Belen ^e   Alkan, Can ^f   Marques Bonet, Tomas ^e   Menotti Raymond, Marylin ^g   David, Victor A ^g   Narfström, Kristina ^h   O'Brien, Stephen J ^a,i   more..

^a ST PETERSBURG STATE UNIVERSITY   (Russian Federation)

^b NATIONAL INSTITUTE ON ALCOHOL ABUSE AND ALCOHOLISM   (United States)

^c UNIVERSITY OF PORTO   (Portugal)

^d UNIVERSITAT AUTÒNOMA DE BARCELONA   (Spain)

^e UNIVERSITAT POMPEU FABRA   (Spain)

^f BILKENT UNIVERSITY   (Turkey)

^g FREDERICK NATIONAL LABORATORY FOR CANCER RESEARCH   (United States)

^h UNIVERSITY OF MISSOURI   (United States)

ⁱ NOVA SOUTHEASTERN UNIVERSITY   (United States)

Author keywords

Annotation; Assembly; Domestic cat; European wildcat; Felis catus; Felis silvestris silvestris; Genome sequence

Indexed keywords

CYTOSINE; MICRORNA;

ANIMAL GENETICS; ARTICLE; DOMESTIC CAT; GENE IDENTIFICATION; GENETIC CODE; GENETIC VARIABILITY; GENOME ANALYSIS; METHYLATION; MOLECULAR GENETICS; NONHUMAN; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; SPECIES COMPARISON; WILD ANIMAL;

EID: 84939261538     PISSN: None     EISSN: 2047217X     Source Type: Journal    
DOI: 10.1186/2047-217X-3-13     Document Type: Article

References (12)

1. Miller JR, Delcher AL, Koren S, Venter E, Walenz BP, Brownley A, Johnson J, Li K, Mobarry C, Sutton G. Aggressive assembly of pyrosequencing reads with mates. Bioinformatics 2008, 24(24):2818-2824. 10.1093/bioinformatics/btn548, 2639302, 18952627.
2. Hillier L, Warren W, O'Brien S, Wilson R, . International Cat Genome Sequencing Consortium NCBI. http://www.ncbi.nlm.nih.gov/nuccore/AANG00000000, International Cat Genome Sequencing Consortium.
3. Davis BW, Raudsepp T, Pearks Wilkerson AJ, Agarwala R, Schäffer AA, Houck M, Chowdhary BP, Murphy WJ. A high-resolution cat radiation hybrid and integrated FISH mapping resource for phylogenomic studies across Felidae. Genomics 2009, 93(4):299-304. 10.1016/j.ygeno.2008.09.010, 2656592, 18951970.
4. Menotti-Raymond M, David VA, Schäffer AA, Tomlin JF, Eizirik E, Phillip C, Wells D, Pontius JU, Hannah SS, O'Brien SJ. An autosomal genetic linkage map of the domestic cat, Felis silvestris catus. Genomics 2009, 93(4):305-313. 10.1016/j.ygeno.2008.11.004, 2656606, 19059333.
5. Theodosius Dobzhansky Center for Genome Bioinformatics GARfield genome browser. http://garfield.dobzhanskycenter.org, Theodosius Dobzhansky Center for Genome Bioinformatics.
6. Hubbard T, Barker D, Birney E, Cameron G, Chen Y, Clark L, Cox T, Cuff J, Curwen V, Down T, Durbin R, Eyras E, Gilbert J, Hammond M, Huminiecki L, Kasprzyk A, Lehvaslaiho H, Lijnzaad P, Melsopp C, Mongin E, Pettett R, Pocock M, Potter S, Rust A, Schmidt E, Searle S, Slater G, Smith J, Spooner W, Stabenau A, et al. The Ensembl genome database project. Nucleic Acids Res 2002, 30:38-41. 10.1093/nar/30.1.38, 99161, 11752248.
7. Pontius JU, Mullikin JC, Smith DR, Lindblad-Toh K, Gnerre S, Clamp M, Chang J, Stephens R, Neelam B, Volfovsky N, Schäffer AA, Agarwala R, Narfström K, Murphy WJ, Giger U, Roca AL, Antunes A, Menotti-Raymond M, Yuhki N, Pecon-Slattery J, Johnson WE, Bourque G, Tesler G, O'Brien SJ, . Agencourt Sequencing Team Initial sequence and comparative analysis of the cat genome. Genome Res 2007, 17(11):1675-1689. 10.1101/gr.6380007, 2045150, 17975172, Agencourt Sequencing Team.
8. Mullikin J, Hansen N, Shen L, Ebling H, Donahue W, Tao W, Saranga D, Brand A, Rubenfield M, Young A, Cruz P, Program NCS, Driscoll C, David V, Al-Murrani S, Locniskar M, Abrahamsen M, O'Brien S, Smith D, Brockman J. Light whole genome sequence for SNP discovery across domestic cat breeds. BMC Genomics 2010, 11:406. 10.1186/1471-2164-11-406, 2996934, 20576142.
9. Driscoll CA, Menotti-Raymond M, Roca AL, Hupe K, Johnson WE, Geffen E, Harley EH, Delibes M, Pontier D, Kitchener AC, Yamaguchi N, O'Brien SJ, Macdonald DW. The near eastern origin of cat domestication. Science 2007, 317(5837):519-523. 10.1126/science.1139518, 17600185.
10. Lindblad-Toh K, Garber M, Zuk O, Lin M, Parker B, Washietl S, Kheradpour P, Ernst J, Jordan G, Mauceli E, Ward L, Lowe C, Holloway A, Clamp M, Gnerre S, Alföldi J, Beal K, Chang J, Clawson H, Cuff J, Di Palma F, Fitzgerald S, Flicek P, Guttman M, Hubisz M, Jaffe D, Jungreis I, Kent W, Kostka D, Lara M, et al. A high-resolution map of human evolutionary constraint using 29 mammals. Nature 2011, 478(7370):476-482. 10.1038/nature10530, 3207357, 21993624.
11. Griffiths-Jones S, Grocock RJ, Van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res 2006, 34(suppl 1):D140-D144. 1347474, 16381832.
12. Tamazian G, Simonov S, Dobrynin P, Makunin A, Logachev A, Komissarov A, Shevchenko A, Brukhin V, Cherkasov N, Svitin A, Koepfli K, Pontius J, Driscoll CA, Blackistone K, Barr C, Goldman D, Antines A, Quilez J, Lorente-Galdos B, Alkan C, Marques-Bonet T, Menotti-Raymond M, David V, Narfström K, O'Brien SJ. Genomic data of the domestic cat (Felis catus). GigaSci Database 2014, http://dx.doi.org/10.5524/100098.