2008年に岩波の「科学」にちょっとしたレビューを書いた事があります(川島武士、他 (2008) 科学 vol. 78 「動物ゲノム解読の10年がもたらした新しい進化観」この頁の最後からダウンロードできるようにしました)。その時に気がついたのですが、Genomeが解読された動物の論文のリストって、案外手に入りづらいんです。GoldはPublishされてないものが含まれていますし、KEGGのOrganismsが使いよいですが、更新がやや遅いのとWhole Genome以外に大量ESTなどが入っていたりするので、やや分かりづらい。
そういうわけで、ここにどんどんまとめて行こうかなと思います。2007年までは、この頁の下記からダウンロードできるPDF(img02351.pdf)に書いてあるもので全てだと思います。
なお、ほとんどの下記論文は、わたしとは何の関係もありません。（幸い関係のあるものもあるんですが。）
(Under Constructionです。随時更新)
下記も参照ください。
--2003--
イヌのゲノム
Kirkness EF. et al., Science, Vol. 301, 1898-1903 (2003)
The Dog Genome: Survey Sequencing and Comparative Analysis.
--2004--
チンパンジーのゲノム（22番染色体）
The International Chimpanzee Chromosome 22 Consortium. Nature. Vol. 429, 382-388 (2004)
DNA sequence and comparative analysis of chimpanzee chromosome 22.
カイコのゲノム (3x coverage)/ Silkworm
Mita K. et al., DNA Research Vol. 11, 27-35 (2004)
The Genome Sequence of Silkworm, Bombyx mori.
DATA: 49,345 Scaffolds. 514 Mb with gaps. 387 Mb without gaps.
Estimated Genome Size, 530 Mb.
カイコのゲノム (5.9x coverage) / Silkworm
Biology Analysis Group: Xia Q., et al., Science Vol. 306, 1937-1940 (2004)
A Draft Sequence for the Genome of the Domesticated Silkworm (Bombyx mori)
DATA: N50 contig and scaffold sizes, 12.5kb and 26.9kb.
Total Esimated Genome Size is 428.7 Mb.
INSDC: AADK00000000, version AADK01000000. GenBank: CK484630 to CK565104.
--2005--
イヌのゲノム再び
Lindblad-Toh. K., et al., Nature, Vol. 438, 803-819 (2005)
Genome sequence, comparative analysis and haplotype structure of the domestic dog.
チンパンジーのゲノム(ドラフト全ゲノム)
Initial sequence of the chimpanzee genome and comparison with the human genome.
Chimpanzee Sequencing and Analysis Consortium. Nature, Vol. 437, 69-87 (2005)
ホラアナグマ（洞穴グマ）のゲノム（26861bpのみ）
Noonan JP., et al., Science, Vol 309, 597-599 (2005)
Genomic Sequencing of Pleistocene Cave Bears.
--2006--
チンパンジーのゲノム(Y染色体)
Kuroki Y. et al., Nature Genetics, Vol. 38, 158-167 (2006)
Comparative analysis of chimpanzee and human Y chromosomes unveils complex evolutionary pathway.
--2007--
イソギンチャクのゲノム
Putnam NH, et al. Science Vol. 317, 86-94 (2007)
Sea anemone genome reveals ancestral eumetazoan gene repertoire and genomic organization.
ネコのゲノム
Pontius JU., et al. Genome Res. Vol. 17, 1675-89. (2007)
Initial sequence and comparative analysis of the cat genome.
オポッサムのゲノム
Mikkelsen TS, et al., Nature, Vol. 447, 167-77 (2007)
Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences.
--2008--
ナメクジウオのゲノム
Putnam NH, et al., Nature Vol. 453. 1064-1071 (2008)
The amphioxus genome and the evolution of the chordate karyotype.
センモウヒラムシのゲノム
Srivastava M, et al., Nature Vol. 454, 955-60 (2008)
The Trichoplax genome and the nature of placozoans.
植物寄生性のセンチュウのゲノム
Abad P, et al., Nature Biotechnology Vol. 26, 909-915 (2008)
Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita.
寄生蜂3種のゲノム
Warren JH. et al., Science, Vol. 327, Issue 5963, pp. 343-348 ( 2010 )
Nasonia vitripennis, N. giraulti, and N. longicornis
DOI: 10.1126/science.1178028
--2009--
ウシのゲノム
BGSAC, Elsik CG, et al., Science Vol. 324, 522-528 (2009)
The genome sequence of taurine cattle: a window to ruminant biology and evolution.
DATA: 22,000 genes.
ウシの一塩基多型多様性 (497個体からの37,470 SNPs)
The Bovine HapMap Consortium, Science Vol 324. 528-532 (2009)
Genome-Wide Survery of SNP Variation Uncovers the Genetic Structure of Cattle Breeds.
DATA: 37,470 SNPs in 497 cattle from 19 geographycally and biologically diverse breeds.
ウマのゲノム
Wade CM, et al., Science Vol. 326, 865-867 (2009)
Genome sequence, comparative analysis, and population genetics of the domestic horse.
ジュウケツキュウチュウ（住血吸虫）のゲノム
Berriman M, et al., Nature Vol. 460, 352-358 (2009)
The genome of the blood fluke Schistosoma mansoni.
カイコ類40種 (カイコ29系統とクワコ11系統)のゲノム / Genome of 40 Silkworms
Xia Q., et al., Science Vol. 326, 433-436 (2009)
Complete Resequencing of 40 Genomes Reveals Domestication Events and Genes in Silkworm (Bombyx)
--2010--
アブラムシ（アリマキ）のゲノム
The International Aphid Genomics Consortium. PLoS Biol., 2010 February; 8(2): e1000313. (2010)
Genome Sequence of the Pea Aphid Acyrthosiphon pisum
シラミのゲノム
Kirkness EF, et al., Kirkness EF, et al. PNAS. Vol. 107, 12168-12173 (2010)
Genome sequences of the human body louse and its primary endosymbiont provide insights into the permanent parasitic lifestyle.
パンダのゲノム
Li, R. et al., Nature, Vol. 463, 311-318 (2010)
The sequence and de novo assembly of the giant panda genome.
ネッタイイエカのゲノム
Arensburger, P. et al., Science, Vol. 330, 86-88 (2010)
Sequencing of Culex quinquefasciatus Establishes a Platform for Mosquito Comparative Genomics.
アリ２種のゲノム
Bonasio, R. et al., Science, Vol. 329, 1068-1071. (2010)
Genomic Comparison of the Ants Camponotus floridanus and Harpegnathos saltator.
ヒドラのゲノム
Chapman JA, et al. Nature Vol. 464, 592-596. (2010)
The dynamic genome of Hydra.
ニワトリ9種（家禽8系統と野生種1種）のゲノム
Rubin CJ., et al., Nature Vol. 464, 587-593. (2010)
Whole-genome resequencing reveals loci under selection during chicken domestication.
シチメンチョウ（七面鳥）のゲノム
Dalloul RA, et al., PLoS Biol 8:e1000475 (2010)
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.
ゼブラフィンチ（綿花鳥）のゲノム
Warren WC, et al. Nature Vol. 464, 757-762 (2010)
The genome of a songbird.
カイメンのゲノム
Srivastava M, et al., Nature Vol. 466. 720-726. (2010)
The Amphimedon queenslandica genome and the evolution of animal complexity.
カエル（ネッタイツメガエル）のゲノム
Hellsten U, et al., Science Vol. 328, 633-636 (2010)
The genome of the Western clawed frog Xenopus tropicalis.
ネアンデルタール人のゲノム
Green RE., Science Vol. 328, 710-722 (2010)
A Draft Sequence of the Neandertal Genome.
--2011--
オランウータンのゲノム
Locke, DP. et al., Nature, Vol. 469, 529-533. (2011)
Comparative and demographic analysis of orang-utan genomes.
サンゴ（ミドリイシ）のゲノム
Shinzato, C. et al., Nature, Vol. 476, 320-324. (2011)
Using the Acropora digitifera genome to understand coral responses to environmental change.
アリ（カミアリ）のゲノム
Wurm Y. et al., PNAS, Vol. 108, 5679-5684. (2011)
The genome of the fire ant Solenopsis invicta.
トカゲ（グリーンアノール）のゲノム
Alfoldi J, et al. Nature Vol. 477, 587-591 (2011)
The genome of the green anole lizard and a comparative analysis with birds and mammals.
カニクイザルのゲノム
Ebeling M. et al., Genome Res Vol. 21, 174601756 (2011)
Genome-based analysis of the nonhuman primate Macaca fascicularis as a model for drug safety assessment
デニソヴァ人のゲノム
Meyer M. et al., Science Vol. 338, 222-226 (2012)
A High-Coverage Genome Sequence from an Archaic Denisovan Indivitual.
--2012--
アコヤガイのゲノム
Takeuchi, T., et al. DNA Research, Vol. 19, 117-130. (2012)
Draft Genome of the Pearl Oyster Pinctada fucata: A Platform for Understanding Bivalve Biology.
カニクイザルのゲノム再び
Higashino, A., et al. Genome Biology, Vol. 13, R58 (2012)
Whole-genome sequencing and analysis of the Malaysian cynomolgus macaque (Macaca fascicularis) genome.
ゴリラのゲノム
Scally A., et al. Nature, Vol, 483, 169-175. (2012)
Insights into hominid evolution from the gorilla genome sequence.
カキ（牡蠣）のゲノム
Zhang G., et al. Nature, Vol. 490, 49-54. (2012)
The oyster genome reveals stress adaptation and complexity of shell formation
トゲウオのゲノム
Jones, FC. et al., Nature, Vol. 484, 55-61 (2012)
genomic basis of adaptive evolution in threespine sticklebacks.
ブタのゲノム
Groenen MA, et al., Nature, Vol. 491 393-398 (2012)
Analyses of pig genomes provide insight into porcine demography and evolution.
シロエリヒタキとマダラヒタキのゲノム
Ellegren H. et al., Nature, Vol. 491, 756-760 (2012)
The genomic landscape of species divergence in Ficedula flycatchers.
ボノボ（ピグミーチンパンジー）のゲノム
Prufer K, et al., Nature, Vol. 486, 527-531 (2012)
The bonobo genome compared with the chimpanzee and human genomes.
ホッキョクグマ、ヒグマ、アメリカグマ、そして11万年前のホッキョクグマ化石のゲノム
Miller W. et al., PNAS, Vol. 109, E2382-E2390 (2012)
Polar and brown bear genomes reveal ancient admixture and demographic footprint of past climate change.
--2013--
３種の螺旋卵割型の動物 ( カサガイ:軟体動物門腹足綱、ヒル:環形動物門ヒル綱、イトゴカイ:環形動物門多毛綱)
Simakov O. et al. Nature, Vol 493. 526-531 (2013)
Insights into bilaterian evolution from three spiralian genomes.
カワラバトのゲノム
Shapiro MD., et al. Science, Vol 339, 1063-1067 (2013) March
Genomic Diversity and Evolution of the Head Crest in the Rock Pigeon
マガモのゲノム
Huang Y. et al, Nature Genetics, Vol 45, 776-783 (2013) June
The duck genome and transcriptome provide insight into an avian influenza virus reservoir species
ヤツメウナギのゲノム
Smith JJ. et al., Nature Genetics, epub (2013)
Sequencing of the sea lamprey (Petromyzon marinus) genome provides insights into vertebrate evolution.
イヌ属ゲノム（イヌ60個体、オオカミ12個体）
Axelsson E. et al., Nature, Vol. 495, 360-364 (2013)
The genomic signature of dog domestication reveals adaptation to a starch-rich diet.
ハヤブサ族のゲノム（ハヤブサとワキスジハヤブサ）
Zhan X. et al., Nature Genetics, published online 24 March (2013)
Peregrine and saker falcon genome sequences provide insights into evolution of a predatory lifestyle.
Ground Tid (チベット高地生息の小鳥コシジロユキスズメ)
Cai Q. et al., Genome Biology, 2013, 14:R29 (2013)
The genome sequence of the ground tit Pseudopodoces humilis provides insights into its adaptation to high altitude.
カメ（セイブニシキガメ）のゲノム
Abramian J., et al., Genome Biology 2013, 14:R28 (2013)
The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage.
松食い虫（Mountain Pine Beetle）のゲノム
Keeling CI., et al., Genome Biology 2013, 14:R27 (2013)
Draft genome of the mountain pine beetle, Dendroctonus ponderosae Hopkins, a major forest pest.
条虫 4 種のゲノム（多包条虫 (Echinococcus multilocularis), 単包条虫(E. granulosus), 有鉤条虫(Taenia solium), Hymenolepis microstoma ))
Tsai IJ. et al., Nature, Vol. 496, 57–63 (2013)
The genomes of four tapeworm species reveal adaptations to parasitism.
シーラカンスのゲノム
Amemiya CT. et al., Nature, Vol. 496, 311-316 (2013)
The African coelacanth genome provides insights into tetrapod evolution.
ゼブラフィッシュのゲノムその壱
Kettleborough RNW. et al., Nature, Vol. 496, 494-497 (2013)
A systematic genome-wide analysis of zebrafish protein-coding gene function
ゼブラフィッシュのゲノムその弐
Howe K., et al. Nature, Vol. 496, 498-503 (2013)
The zebrafish reference genome sequence and its relationship to the human genome
カメのゲノム
Wang Z., et al. Nature Genetics, online (2013)
The draft genomes of soft-shell turtle and green sea turtle yield insights into the development and evolution of the turtle-specific body plan
ウマのゲノムとモウコノウマ、そして70万年前の太古のウマのゲノム
Orlando L., et al. Nature, Vol 499. 74-81 (2013)
Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse.
クシクラゲのゲノム
Ryan JF., et al. Science, Vol 342. ? (2013) Dec.
The Genome of the Ctenophore Mnemiopsis leidyi and Its Implications for Cell Type Evolution
シーラカンスのゲノム(その2)
Nikaido M, Genome Res. 2013 in press
Coelacanth genomes reveal signatures for evolutionary transition from water to land
ダーリンジハマダラカ(Anopheles darlingi)のゲノム
Marinotti O., et al., Nucleic Ascids Res. (2013) 41:7387-7400
The genome of Anopheles darling, the main neotropical malaria vector.
線形動物のうちエノプルスの一種 (Romanomermis culicivorax) のゲノム
Schiffer PH., et al., BMC Genomics. (2013) 14:923
The genome of Romanomermis culicivorax: revealing fundamental changes in the core developmental genetic toolkit in Nematoda
輪形動物（ワムシ）の一種（Adineta vaga）のゲノム
Flot JF., et al., Nature. (2013) 500:453-457.
Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga
--2014--
ゾウギンザメ(Elephant shark)のゲノム (あらためての全ゲノム)
Venkatesh By., et al. Nature., Vol. 505, 174-179 (2014)
Elephant shark genome provides unique insights into gnathostome evolution.
アルタイ山脈近くのネアンデルタールのゲノム
Prufer K., et al. Nature, Vol 505. 43-49 (2014)
The complete genome sequence of a Neanderthal from the Altai Mountains.
トノサマバッタ(Locust)のゲノム
Wang X. et al., Nat. Commun., Vol 5:2957
The locust genome provides insight into swarm formation and long-distance flight.
クモ(Spider)のゲノム
Sanggard KW., Nat. Commun., Vol (May 2014)
Spider genomes provide insight into composition and evolution of venom and silk
ホッキョクグマ(Polar Bear)の集団ゲノム科学
Liu S., et al., Cell. Vol. 157, 785-794 (2014)
Population Genomics Reveal Recent Speciation and Rapid Evolutionary Adaptation in Polar Bears
ナナフシ (Stick Insect)のゲノム
Soria-Carrasco V., et al., Science. Vol. 344, 738-742
Stick Insect Genomes Reveal Natural Selection's Role in Parallel Speciation
シロアリ ( Termite / Zootermopsis nevadensis / ネバダオオシロアリ )のゲノム
Terrapon N., Nature Communications. Vol. 5, an. 3636 (2014)
Molecular traces of alternative social organization in a termite genome
シロアリ ( Termite / Macrotermes natalensis / ナタールオオキノコシロアリ )のゲノムとその生活環にあるキノコなどのゲノム
Poulsen M., et al. PNAS. Vol. 111, pp 14500-14505 (2014)
Complementary symbiont contributions to plant decomposition in a fungus-farming termite
メクラデバネズミ( blind mole rat / Sapalax galili / メクラデバネズミ)のゲノム
Fang X., et al., Nature Communications. Vol. 5, an. 3966 (2014)
Genome-wide adaptive complexes to underground stresses in blind mole rats Spalax
シネンシスハマダラカ(Anopheles sinensis)のゲノム
Zhou D. et al., BMC Genomics (2014) 15:42
Genome Sequence of Anopheles saneness provides insight into genetic basis of mosquito competence for malaria parasites.
ステフェンサイハマダラカ(Anopheles stephensi)のゲノム
Jiang X., et al., Genome Biology. Vol. 15:459, 1-18, (2014)
Genome analysis of a major urban malaria vector mosquito, Anopheles stephensi.
ウサギ (Oryctolagus cuniculus cuniculus & O. c. algirus) のゲノム
Carneiro., et al., Science. Vol 345. 1074-1079.
Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication
--2015--
4種のハゼのゲノム
You X. et al. Nature Communications. an. 5594 (2015).
Mudskipper genomes provide insights into the terrestrial adaptation of ambitious fishes
数種のハチのゲノム
Kapheim KM. et al. Science. v348 (6239) : 1139-1143 (2015)
Genomic signatures of evolutionary transitions from solitary to group living
タコのゲノム
Alvertin CB., Simakov O., et al., Nature, 524, 220-224
The octopus genome and the evolution of cephalopod neural and morphological novelties.
Octopus bimaculoides, Two-spot octopus
2種のギボシムシのゲノム
Simakov O, Kawashima T., et al., Nature, 527, 459-465 (2015)
Hemichordate genomes and deuterostome origins.
--2016--
ヨコエビのゲノム
Kao D. Lai AG., Stamataki E., et al.,
bioRxiv, doi: http://dx.doi.org/10.1101/065789
The genome of the crustacean Parhyale hawaiensis: a model for animal development, regeneration, immunity and lignocellulose digestion
ヒラメのゲノム
Shao Ch., et al.,
Nature Genetics (2016) doi:10.1038/ng.3732
The genome and transcriptome of Japanese flounder provide insights into flatfish asymmetry.