The genome of the American aligator (Alligator mississippiensis).
Dataset type: Genomic
Data released on October 29, 2014
Green RE; Braun EL; Armstrong J; Earl D; Nguyen N; Hickey G; Vandewege MW; St John JA; Capella-Gutierrez S; Castoe TA; Kern C; Fujita MK; Opazo JC; Jurka J; Kojima KK; Caballero J; Hubley RM; Smit AF; Platt RN; Lavoie CA; Ramakodi MP; Finger Jr. JW; Suh A; Isberg SR; Miles L; Chong AY; Jaratlerdsiri W; Gongora J; Moran C; Iriarte A; McCormack J; Burgess SC; Edwards SV; Lyons E; Williams C; Breen M; Howard JT; Gresham CR; Peterson DG; Schmitz J; Pollock DD; Haussler D; Triplett EW; Zhang G; Irie N; Jarvis ED; Brochu CA; Schmidt CJ; McCarthy FM; Faircloth BC; Hoffmann FG; Glenn TC; Gabaldon T; Paten B; Ray DA (2014): The genome of the American aligator (Alligator mississippiensis). GigaScience Database. http://dx.doi.org/10.5524/100126
The American alligator (Alligator mississippiensis)), as the name suggests, is endemic to North America, specifically to the South-East United States, where it inhabits wetlands on the Atlantic coast from North Carolina to Florida, and in the Northern Gulf of Mexico west to Texas.
These data have been produced as part of the Crocodilian Genomes Project. Genomic DNA was isolated using blood from two wild-caught individuals. Briefly, the alligator data consisted of Illumina sequences from five libraries ranging from 5.5 to 88.7x coverage. These reads were assembled using AllPaths-LG with default parameters. Legacy data from 21 fully sequenced BACs, 1309 BAC-end read pairs, and RNASeq data, were also used to aid the assembly.
Additional details
Read the peer-reviewed publication(s):
Green, R. E., Braun, E. L., Armstrong, J., Earl, D., Nguyen, N., Hickey, G., … Castoe, T. A. (2014). Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science, 346(6215), 1254449–1254449. doi:10.1126/science.1254449
Related datasets:
doi:10.5524/100126 IsPartOf doi:10.5524/100125
Accessions (data generated as part of this study):
PROJECT:
PRJNA162735
SAMPLE:
SAMN02981418
Projects:
| Sample ID | Taxonomic ID | Common Name | Genbank Name | Scientific Name | Sample Attributes |
|---|---|---|---|---|---|
| amis | 8496 | American alligator | Alligator mississippiensis | Alternative accession-BioSample:SAMN02981418 Life stage:adult Estimated genome size:unknown size ... + |
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