TY  - JOUR
A1  - Autenrieth, Marijke
A1  - Hartmann, Stefanie
A1  - Lah, Ljerka
A1  - Roos, Anna
A1  - Dennis, Alice B.
A1  - Tiedemann, Ralph
T1  - High-quality whole-genome sequence of an abundant Holarctic odontocete, the harbour porpoise (Phocoena phocoena)
JF  - Molecular ecology resources
N2  - The harbour porpoise (Phocoena phocoena) is a highly mobile cetacean found across the Northern hemisphere. It occurs in coastal waters and inhabits basins that vary broadly in salinity, temperature and food availability. These diverse habitats could drive subtle differentiation among populations, but examination of this would be best conducted with a robust reference genome. Here, we report the first harbour porpoise genome, assembled de novo from an individual originating in the Kattegat Sea (Sweden). The genome is one of the most complete cetacean genomes currently available, with a total size of 2.39 Gb and 50% of the total length found in just 34 scaffolds. Using 122 of the longest scaffolds, we were able to show high levels of synteny with the genome of the domestic cattle (Bos taurus). Our draft annotation comprises 22,154 predicted genes, which we further annotated through matches to the NCBI nucleotide database, GO categorization and motif prediction. Within the predicted genes, we have confirmed the presence of >20 genes or gene families that have been associated with adaptive evolution in other cetaceans. Overall, this genome assembly and draft annotation represent a crucial addition to the genomic resources currently available for the study of porpoises and Phocoenidae evolution, phylogeny and conservation.
KW  - cetaceans
KW  - genomics/proteomics
KW  - mammals
KW  - molecular evolution
Y1  - 2018
U6  - https://doi.org/10.1111/1755-0998.12932
SN  - 1755-098X
SN  - 1755-0998
VL  - 18
IS  - 6
SP  - 1469
EP  - 1481
PB  - Wiley
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Speller, Camilla
A1  - van den Hurk, Youri
A1  - Charpentier, Anne
A1  - Rodrigues, Ana
A1  - Gardeisen, Armelle
A1  - Wilkens, Barbara
A1  - McGrath, Krista
A1  - Rowsell, Keri
A1  - Spindler, Luke
A1  - Collins, Matthew J.
A1  - Hofreiter, Michael
T1  - Barcoding the largest animals on Earth: ongoing challenges and molecular solutions in the taxonomic identification of ancient cetaceans
JF  - Philosophical transactions of the Royal Society of London : B, Biological sciences
KW  - ancient DNA
KW  - archaeozoology
KW  - cetaceans
KW  - collagen peptide mass fingerprinting
KW  - species identification
KW  - zooarchaeology by mass spectrometry
Y1  - 2016
U6  - https://doi.org/10.1098/rstb.2015.0332
SN  - 0962-8436
SN  - 1471-2970
VL  - 371
PB  - Royal Society
CY  - London
ER  -