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Title: Genome skimming resolves the giant clam (Bivalvia: Cardiidae: Tridacninae) tree of life
Authors: Edwin Y.W. Tan 
Z.B. Randolph Quek 
Mei Lin Neo 
Cécile Fauvelot
Danwei Huang
Keywords: Coral reef
next-generation sequencing
Issue Date: 8-Jan-2021
Publisher: Springer
Citation: Edwin Y.W. Tan, Z.B. Randolph Quek, Mei Lin Neo, Cécile Fauvelot, Danwei Huang (2021-01-08). Genome skimming resolves the giant clam (Bivalvia: Cardiidae: Tridacninae) tree of life. Coral Reefs. ScholarBank@NUS Repository.
Abstract: Giant clams are conspicuous bivalves inhabiting Indo-Pacific reefs. Since Rosewater’s seminal paper in 1965, the number of giant clam species described or resurrected has exactly doubled. The increased number of species reported and accessibility to genetic material of rare or uncommon species therefore call for a reappraisal of the phylogenetic relationships within the Tridacninae subfamily. Here, we aim to reconstruct the evolutionary relationships among all the 12 extant species by performing a comprehensive phylogenetic analysis of mitochondrial genome data from a combination of genome skimming, Sanger sequencing and previously published sequences. When comparing the mitogenomes among Tridacninae species, we report two new findings: 1) the T. crocea mitogenome length obtained here (18,266 bp) is shorter than previously known, and 2) the mitochondrial gene order in T. crocea and T. squamosa differs from the other species. Our phylogeny based on a concatenated 16-gene dataset (15 mitochondrial markers and nuclear 18S rRNA) reveals highly supported relationships within and between the three subgenera, Tridacna (Tridacna), Tridacna (Persikima) and Tridacna (Chametrachea). Overall, the inclusion of new molecular markers greatly improves the confidence and support for the subfamily’s phylogeny. The availability of this comprehensive phylogenetic dataset serves as the foremost baseline of Tridacninae relationships to support future studies examining giant clam systematics, ecology and conservation.
Source Title: Coral Reefs
ISSN: 07224028
DOI: 10.1007/s00338-020-02039-w
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