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Aquila_chrysaetos-1.0.2

Organism name:
Aquila chrysaetos canadensis (golden eagle)
Isolate:
GSEH35GE
Sex:
male
BioSample:
SAMN03079786
BioProject:
PRJNA256103
Submitter:
The Genome Institute - Washington University School of Medicine
Date:
2014/10/14
Synonyms:
aquChr2
Assembly level:
Scaffold
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000766835.1 (latest)
RefSeq assembly accession:
GCF_000766835.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT (in non-nuclear assembly-unit)
  • Data displayed for RefSeq version
WGS Project:
JRUM01
Assembly method:
AllPaths-LG v. August 2013
Genome coverage:
88x
Sequencing technology:
Illumina

IDs: 217061 [UID] 1361568 [GenBank] 1676668 [RefSeq]

See Genome Information for Aquila chrysaetos

There are 3 assemblies for this organism

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History (Show revision history)

Comment

Background: The golden eagle (Aquila chrysaetos) is one of the best-known birds of prey in the Northern Hemisphere. It is the most widely distributed species of eagle, occurring throughout Europe, Asia, northern Africa and North America. Golden eagles and ... their conservation are very important to Native Americans, because of the eagle's prominence in the culture of so many tribes, including the Iowa tribe of Oklahoma. The Iowa Tribe has a vested interest in the conservation of the golden eagle as their Grey Snow Eagle House's mission includes preserving the golden eagle through conservation. Therefore, the Iowa Tribe is funding the sequencing and assembly of the genome, which represents an initial step towards elucidating the relatively unknown golden eagle population structure.
 The Golden Eagle, Aquila chrysaetos canadensis, DNA blood sample was obtained from a male with a Oklahoma State Unversity ID of GSEH35GE. Total sequence assembled coverage of Illumina instrument reads was 88X (frags, 3kb and 8kb inserts) using a genome size estimate of 1.2Gb. The combined sequence reads were assembled using AllPaths_LG (Gnerre et al). Contamination was removed by screening the assembly against TGI (WUSTL) assemblies, several bacterial genomes and Illumina adapter sequences. Potential contaminants were confirmed by blasting against the NCBI nr/nt sequences. This draft assembly was referred to as Aquila chrysaetos 1.0.2. The assembly is made up of a total of 1141 scaffolds with an N50 scaffold length of almost 9.2Mb and an N50 contig length of over 172Kb. The assembled genome spans almost 1.2Gb when including gaps.
 DNA samples can be obtained from:
 Dr. Ronald A. Van Den Bussche Department of Zoology 501 Life Science West Oklahoma State University Stillwater, OK 74078 Email: ron.van_den_bussche@okstate.edu
 For questions regarding this Golden Eagle assembly please contact Dr. Wesley Warren, Washington University School of Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data are available via the NCBI SRA database. 

 Credits:
 DNA source - Dr. Ronald A. Van Den Bussche, Oklahoma State University
 Sequencing - The Genome Institute, Washington University School of Medicine, St Louis, MO. 
 Sequence assembly - The Genome Institute, Washington University School of Medicine, St Louis, MO
 Citation upon use of this assembly in a manuscript:
 It is requested that users of this Aquila chrysaetos 1.0.2 sequence assembly acknowledge Dr. Wesley Warren and The Genome Institute, Washington University School of Medicine in any publications that result from use of this sequence assembly. 
 Aquila chrysaetos 1.0.2 assembly stats:
 *** Contiguity: Contig *** Total contig number: 17031 Total contig bases: 1180019022 bp Average contig length: 69287 bp Maximum contig length: 1113908 bp N50 contig length: 172329 bp N50 contig number: 2004
 *** Contiguity: Supercontig *** Total supercontig number: 1141 Average supercontig length: 1034197 bp Maximum supercontig length: 30467530 bp N50 supercontig length: 9157546 bp N50 supercontig number: 40
 *** Scaffold Distribution*** Scaffolds > 1M: 174 Scaffold 250K--1M: 63 Scaffold 100K--250K: 33 Scaffold 10--100K: 158 Scaffold 5--10K: 100 Scaffold 2--5K: 242 Scaffold 0--2K: 371  more

Global statistics

Total sequence length1,192,743,076
Total assembly gap length12,706,722
Gaps between scaffolds0
Number of scaffolds1,142
Scaffold N509,230,743
Scaffold L5040
Number of contigs17,032
Contig N50172,329
Contig L502,004
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)17,032

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PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
non-nuclear
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced1,192,725,7441,1411,180,019,0229,230,74315,8900
MoleculeTotal
Length
Mitochondrion MT17,332
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