About Gigantidas platifrons

Gigantidas platifrons is a deep-sea mussel that is common in hydrothermal vents and methane seeps in the Western Pacific Ocean. It is found in hydrothermal vents in the Okinawa Trough and cold seeps in Sagami Bay (Japan) and the South China Sea. Morever, it harbours methane-oxidizing bacteria in its gill, which help to transfer methane into material and energy to help it to thrive in such environments.

Classification

Animalia (Kingdom); Mollusca (Phylum); Bivalvia (Class); Autobranchia (Subclass); Pteriomorphia (Infraclass); Mytilida (Order); Mytiloidea (Superfamily); Modiolidae (Family); Bathymodiolinae (Subfamily); Gigantidas (Genus); Gigantidas platifrons (Species)

Original Name

Bathymodiolus platifrons Hashimoto & Okutani, 1994

Key Reference Paper

1. Hashimoto J, Okutani T. Four new mytilid mussels associated with deepsea chemosynthetic communities around Japan[J]. Venus (Japanese Journal of Malacology), 1994, 53(2): 61-83. (Hashimoto et al., 1994)

Description

Shell large, up to 115 mm long, rather thick and solid, inflated,modioliform, oblong rounded-triangular in lateralview, equivalve, inequilateral,heightllengthratio O.50-O.68, width/length ratio O.34-O.47. Umbones prosogyrated, often nearly subterminal, but mostly on the same plane with anterior end of the shell. Umbonal ridge prominent. Anterior end rounded, dorsalmargin slightly convex, postero-dorsal corner round, postero-dorsal margin slightly convex, posterior margin broadly rounded, ventral margin slightly concave or nearly straight, External surface smooth, dull white beneath periostracum, with fine growth linesin juvenileand subadult, but with developed irregularlyspaced growth lirae in adults. Periostracum yellow in juvenileand subadult specimens, but usually yellowish straw, yellow-brown or dark brown in adult specimens, or dark russet in.some specimens. No periostracalhairs present.

Etymology

Ptati means flatand .frons forehead. Because of rather truncated appearance in frontal region of the shell, the name was chosen.

Distribution

Okinoyama Bank and off Hatsushima Sitein Sagami Bay, the Iheya Ridge and the Izena Caldron in the mid-Okinawa Trough, The specimens attached to outcrops with byssus around diffused vents


Basic Information
SpeciesPhylumCommon NameEcosystemDepthHabitatNCBI Taxonomy ID
Gigantidas platifronsMolluscacold seep mussel, Bathymodiolus platifronsCold seep/Hydrothermal vent1,122-1,430methane seep (22° 06.921′ N, 119° 17.131′ E) in the South China Sea2830794

Genome Assembly Information
Genome AssemblyGenome SizeAssembly levelReleased yearWGS accessionSubmitterBioProjectBUSCO completeness (%)Scaffold/Contig N50 (kb)GC content (%)Repeat Rate (%)Gene Number
Bpl_v1.01.64GbScaffold2017MJUT01Hong Kong University of Science and TechnologyPRJNA32854296.30 343.3/12.634.347.9333,584

References
TitleJournalPubmed ID
Adaptation to deep-sea chemosynthetic environments as revealed by mussel genomesNature Ecology & Evolution28812709

Gene Information

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Gene IDDescription
Bpl_scaf_10347-4.122-HYDROXYACYL-COA LYASE
Bpl_scaf_10347-4.13LSM12 HOMOLOG
Bpl_scaf_10347-4.23-
Bpl_scaf_10347-4.24-
Bpl_scaf_10347-4.9LD33804P
Bpl_scaf_10351-0.0U3 SMALL NUCLEOLAR RNA U3 SNORNA ASSOCIATED PROTEIN
Bpl_scaf_10362-0.12-
Bpl_scaf_10362-0.13-
Bpl_scaf_10382-0.3CALCIUM BINDING PROTEINS
Bpl_scaf_10392-0.2MANNOSE, PHOSPHOLIPASE, LECTIN RECEPTOR RELATED
Bpl_scaf_10405-0.8ANK_REP_REGION DOMAIN-CONTAINING PROTEIN
Bpl_scaf_10415-0.5-
Bpl_scaf_10422-0.5LEUCYL-TRNA SYNTHETASE
Bpl_scaf_10435-0.11RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE
Bpl_scaf_10456-0.11DNA HELICASE-RELATED
Bpl_scaf_10456-0.6GLYCOSYLTRANSFERASE 14 FAMILY MEMBER
Bpl_scaf_10463-0.6-
Bpl_scaf_10463-0.9SI:DKEY-31G6.6
Bpl_scaf_10474-0.6-
Bpl_scaf_10486-0.0-

Results of comparison between Gigantidas platifrons and its nearshore relatives from the paper (Sun et al., 2017)

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Annotation IDDescriptionTypeSubtypeGeneRatioEvolution TypeP-valueQ-value
PF13927.3Immunoglobulin domainPfam-830expanded3.94E-636.33E-59
PF07679.13Immunoglobulin I-set domainPfam-746expanded1.92E-541.54E-50
PF00047.22Immunoglobulin domainPfam-677expanded1.58E-478.47E-44
PF07686.14Immunoglobulin V-set domainPfam-605expanded2.02E-418.14E-38
PF13895.3Immunoglobulin domainPfam-603expanded4.02E-361.29E-32
PF00386.18C1q domainPfam-415expanded6.37E-361.71E-32
PF16095.2C-terminal of Roc, COR, domainPfam-175expanded1.92E-273.42E-24
PF00102.24Protein-tyrosine phosphatasePfam-276expanded6.01E-206.91E-17
PF13472.3GDSL-like Lipase/Acylhydrolase familyPfam-176expanded9.54E-189.03E-15
PF16026.2zinc knucklePfam-137expanded4.83E-174.09E-14
PF16680.2T-cell surface glycoprotein CD3 delta chainPfam-169expanded2.07E-161.67E-13
PF00012.17Hsp70 proteinPfam-179expanded1.01E-156.75E-13
PF16706.2Izumo-like Immunoglobulin domainPfam-216expanded5.56E-143.19E-11
PF08205.9CD80-like C2-set immunoglobulin domainPfam-266expanded7.72E-144.28E-11
PF13936.3Helix-turn-helix domainPfam-90expanded4.14E-132.15E-10
PF13565.3Homeodomain-like domainPfam-87expanded5.96E-122.59E-09
PF07654.12Immunoglobulin C1-set domainPfam-170expanded1.39E-115.30E-09
PF02796.12Helix-turn-helix domain of resolvasePfam-73expanded1.52E-105.10E-08
PF00653.18Inhibitor of Apoptosis domainPfam-130expanded1.79E-105.86E-08
PF12012.5Domain of unknown function (DUF3504)Pfam-106expanded2.00E-106.43E-08
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