Dataset: sequence accession numbers

DOI:10.26008/1912/bco-dmo.542665.2
Project: 
Evolution of Deep Sea Molluscs II (Ev Deep Sea Molluscs II)
Principal Investigator: 
Ron J. Etter (University of Massachusetts Boston, UMass Boston)
Contact: 
Ron J. Etter (University of Massachusetts Boston, UMass Boston)
BCO-DMO Data Manager: 
Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)
Version: 
2
Version Date: 
2016-09-23
Restricted: 
No
Validated: 
Yes
Current State: 
Final no updates expected

GenBank accession numbers for sequences from deep-sea protobranch bivalves collected on R/V Endeavor cruise EN447 in the Western North Atlantic (34-39N, 68-70W) in 2008 (Ev Deep Sea Molluscs II project)
Abstract: 
This dataset is comprised of GenBank accession numbers for sequences from deep-sea protobranch bivalves collected on R/V Endeavor cruise EN447 in the Western North Atlantic (34-39N, 68-70W) in 2008.

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Description

Sequence data from this research are available on Genbank with metadata (sample location, depth, date, etc.) and  accession numbers listed in the publications given below. Details of molecular work are also described in the various publications listed below.

Refer to publications:
Glazier, A.E., and Etter, R.J. 2014. Cryptic speciation along a bathymetric gradient. Biological Journal of the Linnean Society, 113:897-913. doi:10.1111/bij.12389
Sequences were deposited in GenBank under accession numbers KM102340-KM102448.

Jennings R.M., and Etter, R.J. 2014. Phylogeographic estimates of colonization of the deep Atlantic by the protobranch bivalve Nucula atacellana. Polish Polar Research, 35: 261-278. Invited Paper. doi:10.2478/popore-2014-0017
New sequences generated in this work were deposited in GenBank under Accessions KJ950184–KJ950282 (Table 1).

Boyle, E.E. and Etter, R.J. 2013. Heteroplasmy in a deep-sea protobranch bivalve suggests an ancient origin of doubly uniparental inheritance of mitochondria in Bivalvia. Marine Biology, 160:413-422. doi:10.1007/s00227-012-2099-y
Sequences from this study are available from GenBank (Accession numbers 16S HQ907887–HQ907914; cytb JX435273–JX435297).

Jennings R.M., Etter, R.J. and Ficarra,L. 2013. Population differentiation and species formation in the deep sea: the potential role of environmental gradients and depth. PLoS ONE, 8(10): e77594. doi:10.1371/journal.pone.0077594
All sequences were deposited in GenBank (Accessions KC563091-KC563901, Table 2).

Sharma, P.P., Zardus, J.D., Boyle, E.E., González, V.L., Jennings, R.M., McIntyre, E., Bouchet, P., Wheeler, W.C., Etter, R.J., and Giribet, G. 2013. Into the deep: A phylogenetic approach to the bivalve subclass Protobranchia. Molecular Phylogenetics and Evolution, 69:188-204. doi:10.1016/j.ympev.2013.05.018
Sequences from this study are available from GenBank (Accession numbers given in Table 2).

Etter, R.J., Boyle, E.E., Glazier, A., Jennings, R.M., Dutra, E., and Chase, M.R. 2011. Phylogeography of a pan-Atlantic abyssal protobranch bivalve: Implications for evolution in the deep Atlantic. Molecular Ecology, 20:829-843. doi:10.1111/j.1365-294X.2010.04978.x
Sequences from this study are available from GenBank - accession numbers are HQ452629–HQ452677.

Jennings, R.M., and Etter, R.J. 2011. Exon-Primed, Intron-Crossing (EPIC) loci for five nuclear genes in deep-sea protobranch bivalves: primer design, PCR protocols, and locus utility. Molecular Ecology Resources, 11:1102-1112. doi:10.1111/j.1755-0998.2011.03038.x
DNA Sequences from this study are available from GenBank - Accessions JF410881– JF411003.

Data Files
File
accession_numbers.csv
(Comma Separated Values (.csv), 221.50 KB)
MD5:6cda85f7a90f94ad66176b4ae33d960b
Primary data file for dataset ID 542665
Supplemental Files
File
Reference List
filename: reference_list_v2.csv
(Comma Separated Values (.csv), 1.46 KB)
MD5:e703b27ef65e319c3686ce29c02c4ea6
Full citation information for entries in the "reference" column of dataset 542655 (PI: Ron Etter).
The "abbreviation" column contains the shortened reference name that appears in dataset 542655.
The "full_reference" column contains the full citation of the paper.

More Information about this dataset