Genomic data of the Rifleman (Acanthisitta chloris).

Dataset type: Genomic
Data released on May 01, 2014

Zhang G; Li B; Li C; Gilbert MTP; Jarvis ED; The Avian Genome Consortium ; Wang J (2014): Genomic data of the Rifleman (Acanthisitta chloris). GigaScience Database. http://dx.doi.org/10.5524/101015

DOI10.5524/101015

The Rifleman (Acanthisitta chloris (Sparrman, 1787)) is an endemic bird to New Zealand and is also known as New Zealand wrens, or Tītipounamu in Maori. It belongs to the Acanthisittidae family, and is one of two surviving species. The Rifleman is named after a colonial New Zealand regiment because its plumage is similar to the military uniform of a rifleman.
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from an animal found dead after in earthquake in Kaikoura, South Island, New Zealand, with tissue provided by Mike Bunce and Paul Scofield. We sequenced the genome to a depth of approximately 29X.
The assembled scaffolds of high quality sequences total 1.05 Gb, with the contig and scaffold N50 values of 18kb and 64kb respectively. We identified 14,596 protein-coding genes with a mean length of 13.5kb.

Additional details

Read the peer-reviewed publication(s):

Zhang, G., Li, B., Li, C., Gilbert, M. T. P., Jarvis, E. D., & Wang, J. (2014). Comparative genomic data of the Avian Phylogenomics Project. GigaScience, 3(1). doi:10.1186/2047-217x-3-26
Zhang, G., Li, C., Li, Q., Li, B., Larkin, D. M., Lee, C., … Meredith, R. W. (2014). Comparative genomics reveals insights into avian genome evolution and adaptation. Science, 346(6215), 1311–1320. doi:10.1126/science.1251385
Jarvis, E. D., Mirarab, S., Aberer, A. J., Li, B., Houde, P., Li, C., … Howard, J. T. (2014). Whole-genome analyses resolve early branches in the tree of life of modern birds. Science, 346(6215), 1320–1331. doi:10.1126/science.1253451

Related datasets:

doi:10.5524/101015 IsSupplementTo doi:10.5524/101000

Accessions (data generated as part of this study):

BioProject: PRJNA212877
SRA: SRP028832

Projects:







Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Rifleman - 1757068RiflemanRiflemanAcanthisitta chloris Source material identifiers:Tom Gilbert
Estimated genome size:unknown size
Funding source:BGI
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Displaying 1-1 of 1 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
Rifleman - 17Coding sequenceFASTA5.51 MB2014-05-01
Rifleman - 17Sequence assemblyFASTA306.06 MB2014-05-01
Rifleman - 17AnnotationGFF1.39 MB2014-05-01
Rifleman - 17Protein sequenceFASTA3.6 MB2014-05-01
Rifleman - 17OtherUNKNOWN10.95 MB2014-05-01
Displaying 1-5 of 5 File(s).
Date Action
October 23, 2015 File Acanthisitta_chloris.cds.gz updated
October 23, 2015 File Acanthisitta_chloris.cds.gz updated
October 23, 2015 File Acanthisitta_chloris.cds.gz updated
October 23, 2015 File Acanthisitta_chloris.cds.gz updated
October 28, 2015 File Acanthisitta_chloris.cds.gz updated
October 31, 2015 File Acanthisitta_chloris.cds.gz updated
November 6, 2015 File Acanthisitta_chloris.fa.gz updated
November 7, 2015 File Acanthisitta_chloris.fa.gz updated