Annotated features of domestic cat – Felis catus genome

Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus...
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Autor*in:	Tamazian, Gaik [verfasserIn] Simonov, Serguei [verfasserIn] Dobrynin, Pavel [verfasserIn] Makunin, Alexey [verfasserIn] Logachev, Anton [verfasserIn] Komissarov, Aleksey [verfasserIn] Shevchenko, Andrey [verfasserIn] Brukhin, Vladimir [verfasserIn] Cherkasov, Nikolay [verfasserIn] Svitin, Anton [verfasserIn] Koepfli, Klaus-Peter [verfasserIn] Pontius, Joan [verfasserIn] Driscoll, Carlos A [verfasserIn] Blackistone, Kevin [verfasserIn] Barr, Cristina [verfasserIn] Goldman, David [verfasserIn] Antunes, Agostinho [verfasserIn] Quilez, Javier [verfasserIn] Lorente-Galdos, Belen [verfasserIn] Alkan, Can [verfasserIn] Marques-Bonet, Tomas [verfasserIn] Menotti-Raymond, Marylin [verfasserIn] David, Victor A [verfasserIn] Narfström, Kristina [verfasserIn] O’Brien, Stephen J [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2014

Schlagwörter:	Domestic cat European wildcat Genome sequence Annotation Assembly

Übergeordnetes Werk:	Enthalten in: GigaScience - Oxford : Oxford University Press, 2012, 3(2014), 1 vom: 05. Aug.
Übergeordnetes Werk:	volume:3 ; year:2014 ; number:1 ; day:05 ; month:08

Links:	Volltext

DOI / URN:	10.1186/2047-217X-3-13

Katalog-ID:	SPR032241887

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520			\|a Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery.
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700	1		\|a Simonov, Serguei \|e verfasserin \|4 aut
700	1		\|a Dobrynin, Pavel \|e verfasserin \|4 aut
700	1		\|a Makunin, Alexey \|e verfasserin \|4 aut
700	1		\|a Logachev, Anton \|e verfasserin \|4 aut
700	1		\|a Komissarov, Aleksey \|e verfasserin \|4 aut
700	1		\|a Shevchenko, Andrey \|e verfasserin \|4 aut
700	1		\|a Brukhin, Vladimir \|e verfasserin \|4 aut
700	1		\|a Cherkasov, Nikolay \|e verfasserin \|4 aut
700	1		\|a Svitin, Anton \|e verfasserin \|4 aut
700	1		\|a Koepfli, Klaus-Peter \|e verfasserin \|4 aut
700	1		\|a Pontius, Joan \|e verfasserin \|4 aut
700	1		\|a Driscoll, Carlos A \|e verfasserin \|4 aut
700	1		\|a Blackistone, Kevin \|e verfasserin \|4 aut
700	1		\|a Barr, Cristina \|e verfasserin \|4 aut
700	1		\|a Goldman, David \|e verfasserin \|4 aut
700	1		\|a Antunes, Agostinho \|e verfasserin \|4 aut
700	1		\|a Quilez, Javier \|e verfasserin \|4 aut
700	1		\|a Lorente-Galdos, Belen \|e verfasserin \|4 aut
700	1		\|a Alkan, Can \|e verfasserin \|4 aut
700	1		\|a Marques-Bonet, Tomas \|e verfasserin \|4 aut
700	1		\|a Menotti-Raymond, Marylin \|e verfasserin \|4 aut
700	1		\|a David, Victor A \|e verfasserin \|4 aut
700	1		\|a Narfström, Kristina \|e verfasserin \|4 aut
700	1		\|a O’Brien, Stephen J \|e verfasserin \|4 aut
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allfields	10.1186/2047-217X-3-13 doi (DE-627)SPR032241887 (SPR)2047-217X-3-13-e DE-627 ger DE-627 rakwb eng 570 610 ASE Tamazian, Gaik verfasserin aut Annotated features of domestic cat – Felis catus genome 2014 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery. Domestic cat (dpeaa)DE-He213 European wildcat (dpeaa)DE-He213 Genome sequence (dpeaa)DE-He213 Annotation (dpeaa)DE-He213 Assembly (dpeaa)DE-He213 Simonov, Serguei verfasserin aut Dobrynin, Pavel verfasserin aut Makunin, Alexey verfasserin aut Logachev, Anton verfasserin aut Komissarov, Aleksey verfasserin aut Shevchenko, Andrey verfasserin aut Brukhin, Vladimir verfasserin aut Cherkasov, Nikolay verfasserin aut Svitin, Anton verfasserin aut Koepfli, Klaus-Peter verfasserin aut Pontius, Joan verfasserin aut Driscoll, Carlos A verfasserin aut Blackistone, Kevin verfasserin aut Barr, Cristina verfasserin aut Goldman, David verfasserin aut Antunes, Agostinho verfasserin aut Quilez, Javier verfasserin aut Lorente-Galdos, Belen verfasserin aut Alkan, Can verfasserin aut Marques-Bonet, Tomas verfasserin aut Menotti-Raymond, Marylin verfasserin aut David, Victor A verfasserin aut Narfström, Kristina verfasserin aut O’Brien, Stephen J verfasserin aut Enthalten in GigaScience Oxford : Oxford University Press, 2012 3(2014), 1 vom: 05. Aug. (DE-627)739900358 (DE-600)2708999-X 2047-217X nnns volume:3 year:2014 number:1 day:05 month:08 https://dx.doi.org/10.1186/2047-217X-3-13 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 3 2014 1 05 08
spelling	10.1186/2047-217X-3-13 doi (DE-627)SPR032241887 (SPR)2047-217X-3-13-e DE-627 ger DE-627 rakwb eng 570 610 ASE Tamazian, Gaik verfasserin aut Annotated features of domestic cat – Felis catus genome 2014 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery. Domestic cat (dpeaa)DE-He213 European wildcat (dpeaa)DE-He213 Genome sequence (dpeaa)DE-He213 Annotation (dpeaa)DE-He213 Assembly (dpeaa)DE-He213 Simonov, Serguei verfasserin aut Dobrynin, Pavel verfasserin aut Makunin, Alexey verfasserin aut Logachev, Anton verfasserin aut Komissarov, Aleksey verfasserin aut Shevchenko, Andrey verfasserin aut Brukhin, Vladimir verfasserin aut Cherkasov, Nikolay verfasserin aut Svitin, Anton verfasserin aut Koepfli, Klaus-Peter verfasserin aut Pontius, Joan verfasserin aut Driscoll, Carlos A verfasserin aut Blackistone, Kevin verfasserin aut Barr, Cristina verfasserin aut Goldman, David verfasserin aut Antunes, Agostinho verfasserin aut Quilez, Javier verfasserin aut Lorente-Galdos, Belen verfasserin aut Alkan, Can verfasserin aut Marques-Bonet, Tomas verfasserin aut Menotti-Raymond, Marylin verfasserin aut David, Victor A verfasserin aut Narfström, Kristina verfasserin aut O’Brien, Stephen J verfasserin aut Enthalten in GigaScience Oxford : Oxford University Press, 2012 3(2014), 1 vom: 05. Aug. (DE-627)739900358 (DE-600)2708999-X 2047-217X nnns volume:3 year:2014 number:1 day:05 month:08 https://dx.doi.org/10.1186/2047-217X-3-13 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 3 2014 1 05 08
allfields_unstemmed	10.1186/2047-217X-3-13 doi (DE-627)SPR032241887 (SPR)2047-217X-3-13-e DE-627 ger DE-627 rakwb eng 570 610 ASE Tamazian, Gaik verfasserin aut Annotated features of domestic cat – Felis catus genome 2014 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery. Domestic cat (dpeaa)DE-He213 European wildcat (dpeaa)DE-He213 Genome sequence (dpeaa)DE-He213 Annotation (dpeaa)DE-He213 Assembly (dpeaa)DE-He213 Simonov, Serguei verfasserin aut Dobrynin, Pavel verfasserin aut Makunin, Alexey verfasserin aut Logachev, Anton verfasserin aut Komissarov, Aleksey verfasserin aut Shevchenko, Andrey verfasserin aut Brukhin, Vladimir verfasserin aut Cherkasov, Nikolay verfasserin aut Svitin, Anton verfasserin aut Koepfli, Klaus-Peter verfasserin aut Pontius, Joan verfasserin aut Driscoll, Carlos A verfasserin aut Blackistone, Kevin verfasserin aut Barr, Cristina verfasserin aut Goldman, David verfasserin aut Antunes, Agostinho verfasserin aut Quilez, Javier verfasserin aut Lorente-Galdos, Belen verfasserin aut Alkan, Can verfasserin aut Marques-Bonet, Tomas verfasserin aut Menotti-Raymond, Marylin verfasserin aut David, Victor A verfasserin aut Narfström, Kristina verfasserin aut O’Brien, Stephen J verfasserin aut Enthalten in GigaScience Oxford : Oxford University Press, 2012 3(2014), 1 vom: 05. Aug. (DE-627)739900358 (DE-600)2708999-X 2047-217X nnns volume:3 year:2014 number:1 day:05 month:08 https://dx.doi.org/10.1186/2047-217X-3-13 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 3 2014 1 05 08
allfieldsGer	10.1186/2047-217X-3-13 doi (DE-627)SPR032241887 (SPR)2047-217X-3-13-e DE-627 ger DE-627 rakwb eng 570 610 ASE Tamazian, Gaik verfasserin aut Annotated features of domestic cat – Felis catus genome 2014 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery. Domestic cat (dpeaa)DE-He213 European wildcat (dpeaa)DE-He213 Genome sequence (dpeaa)DE-He213 Annotation (dpeaa)DE-He213 Assembly (dpeaa)DE-He213 Simonov, Serguei verfasserin aut Dobrynin, Pavel verfasserin aut Makunin, Alexey verfasserin aut Logachev, Anton verfasserin aut Komissarov, Aleksey verfasserin aut Shevchenko, Andrey verfasserin aut Brukhin, Vladimir verfasserin aut Cherkasov, Nikolay verfasserin aut Svitin, Anton verfasserin aut Koepfli, Klaus-Peter verfasserin aut Pontius, Joan verfasserin aut Driscoll, Carlos A verfasserin aut Blackistone, Kevin verfasserin aut Barr, Cristina verfasserin aut Goldman, David verfasserin aut Antunes, Agostinho verfasserin aut Quilez, Javier verfasserin aut Lorente-Galdos, Belen verfasserin aut Alkan, Can verfasserin aut Marques-Bonet, Tomas verfasserin aut Menotti-Raymond, Marylin verfasserin aut David, Victor A verfasserin aut Narfström, Kristina verfasserin aut O’Brien, Stephen J verfasserin aut Enthalten in GigaScience Oxford : Oxford University Press, 2012 3(2014), 1 vom: 05. Aug. (DE-627)739900358 (DE-600)2708999-X 2047-217X nnns volume:3 year:2014 number:1 day:05 month:08 https://dx.doi.org/10.1186/2047-217X-3-13 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 3 2014 1 05 08
allfieldsSound	10.1186/2047-217X-3-13 doi (DE-627)SPR032241887 (SPR)2047-217X-3-13-e DE-627 ger DE-627 rakwb eng 570 610 ASE Tamazian, Gaik verfasserin aut Annotated features of domestic cat – Felis catus genome 2014 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery. Domestic cat (dpeaa)DE-He213 European wildcat (dpeaa)DE-He213 Genome sequence (dpeaa)DE-He213 Annotation (dpeaa)DE-He213 Assembly (dpeaa)DE-He213 Simonov, Serguei verfasserin aut Dobrynin, Pavel verfasserin aut Makunin, Alexey verfasserin aut Logachev, Anton verfasserin aut Komissarov, Aleksey verfasserin aut Shevchenko, Andrey verfasserin aut Brukhin, Vladimir verfasserin aut Cherkasov, Nikolay verfasserin aut Svitin, Anton verfasserin aut Koepfli, Klaus-Peter verfasserin aut Pontius, Joan verfasserin aut Driscoll, Carlos A verfasserin aut Blackistone, Kevin verfasserin aut Barr, Cristina verfasserin aut Goldman, David verfasserin aut Antunes, Agostinho verfasserin aut Quilez, Javier verfasserin aut Lorente-Galdos, Belen verfasserin aut Alkan, Can verfasserin aut Marques-Bonet, Tomas verfasserin aut Menotti-Raymond, Marylin verfasserin aut David, Victor A verfasserin aut Narfström, Kristina verfasserin aut O’Brien, Stephen J verfasserin aut Enthalten in GigaScience Oxford : Oxford University Press, 2012 3(2014), 1 vom: 05. Aug. (DE-627)739900358 (DE-600)2708999-X 2047-217X nnns volume:3 year:2014 number:1 day:05 month:08 https://dx.doi.org/10.1186/2047-217X-3-13 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 3 2014 1 05 08
language	English
source	Enthalten in GigaScience 3(2014), 1 vom: 05. Aug. volume:3 year:2014 number:1 day:05 month:08
sourceStr	Enthalten in GigaScience 3(2014), 1 vom: 05. Aug. volume:3 year:2014 number:1 day:05 month:08
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	Domestic cat European wildcat Genome sequence Annotation Assembly
dewey-raw	570
isfreeaccess_bool	true
container_title	GigaScience
authorswithroles_txt_mv	Tamazian, Gaik @@aut@@ Simonov, Serguei @@aut@@ Dobrynin, Pavel @@aut@@ Makunin, Alexey @@aut@@ Logachev, Anton @@aut@@ Komissarov, Aleksey @@aut@@ Shevchenko, Andrey @@aut@@ Brukhin, Vladimir @@aut@@ Cherkasov, Nikolay @@aut@@ Svitin, Anton @@aut@@ Koepfli, Klaus-Peter @@aut@@ Pontius, Joan @@aut@@ Driscoll, Carlos A @@aut@@ Blackistone, Kevin @@aut@@ Barr, Cristina @@aut@@ Goldman, David @@aut@@ Antunes, Agostinho @@aut@@ Quilez, Javier @@aut@@ Lorente-Galdos, Belen @@aut@@ Alkan, Can @@aut@@ Marques-Bonet, Tomas @@aut@@ Menotti-Raymond, Marylin @@aut@@ David, Victor A @@aut@@ Narfström, Kristina @@aut@@ O’Brien, Stephen J @@aut@@
publishDateDaySort_date	2014-08-05T00:00:00Z
hierarchy_top_id	739900358
dewey-sort	3570
id	SPR032241887
language_de	englisch
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author	Tamazian, Gaik
spellingShingle	Tamazian, Gaik ddc 570 misc Domestic cat misc European wildcat misc Genome sequence misc Annotation misc Assembly Annotated features of domestic cat – Felis catus genome
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topic_title	570 610 ASE Annotated features of domestic cat – Felis catus genome Domestic cat (dpeaa)DE-He213 European wildcat (dpeaa)DE-He213 Genome sequence (dpeaa)DE-He213 Annotation (dpeaa)DE-He213 Assembly (dpeaa)DE-He213
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title	Annotated features of domestic cat – Felis catus genome
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title_full	Annotated features of domestic cat – Felis catus genome
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author_browse	Tamazian, Gaik Simonov, Serguei Dobrynin, Pavel Makunin, Alexey Logachev, Anton Komissarov, Aleksey Shevchenko, Andrey Brukhin, Vladimir Cherkasov, Nikolay Svitin, Anton Koepfli, Klaus-Peter Pontius, Joan Driscoll, Carlos A Blackistone, Kevin Barr, Cristina Goldman, David Antunes, Agostinho Quilez, Javier Lorente-Galdos, Belen Alkan, Can Marques-Bonet, Tomas Menotti-Raymond, Marylin David, Victor A Narfström, Kristina O’Brien, Stephen J
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title_sort	annotated features of domestic cat – felis catus genome
title_auth	Annotated features of domestic cat – Felis catus genome
abstract	Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery.
abstractGer	Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery.
abstract_unstemmed	Background Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. Findings Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. Conclusions The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery.
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title_short	Annotated features of domestic cat – Felis catus genome
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author2	Simonov, Serguei Dobrynin, Pavel Makunin, Alexey Logachev, Anton Komissarov, Aleksey Shevchenko, Andrey Brukhin, Vladimir Cherkasov, Nikolay Svitin, Anton Koepfli, Klaus-Peter Pontius, Joan Driscoll, Carlos A Blackistone, Kevin Barr, Cristina Goldman, David Antunes, Agostinho Quilez, Javier Lorente-Galdos, Belen Alkan, Can Marques-Bonet, Tomas Menotti-Raymond, Marylin David, Victor A Narfström, Kristina O’Brien, Stephen J
author2Str	Simonov, Serguei Dobrynin, Pavel Makunin, Alexey Logachev, Anton Komissarov, Aleksey Shevchenko, Andrey Brukhin, Vladimir Cherkasov, Nikolay Svitin, Anton Koepfli, Klaus-Peter Pontius, Joan Driscoll, Carlos A Blackistone, Kevin Barr, Cristina Goldman, David Antunes, Agostinho Quilez, Javier Lorente-Galdos, Belen Alkan, Can Marques-Bonet, Tomas Menotti-Raymond, Marylin David, Victor A Narfström, Kristina O’Brien, Stephen J
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up_date	2024-07-04T02:51:51.682Z
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Annotated features of domestic cat – Felis catus genome

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