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_45844-0.20RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SMALL CHAIN
Bpl_scaf_45844-0.9DEK PROTEIN
Bpl_scaf_45844-1.26PROTEIN STPG4
Bpl_scaf_45844-1.272-METHYLCITRATE DEHYDRATASE-RELATED
Bpl_scaf_45844-1.28PHYTANOYL-COA DIOXYGENASE DOMAIN CONTAINING 1
Bpl_scaf_45844-1.29GLYOXALASE FAMILY PROTEIN
Bpl_scaf_45844-1.30PHYTANOYL-COA DIOXYGENASE DOMAIN CONTAINING 1
Bpl_scaf_45844-1.7NEURENSIN 1-RELATED
Bpl_scaf_45845-0.0-
Bpl_scaf_45850-0.1MICROSOMAL DIPEPTIDASE
Bpl_scaf_45850-1.13OXIDOREDUCTASE-RELATED
Bpl_scaf_45850-1.18-
Bpl_scaf_45850-1.2UDP-D-XYLOSE:L-FUCOSE ALPHA-1,3-D-XYLOSYLTRANSFERASE-RELATED
Bpl_scaf_45856-0.0THREE PRIME REPAIR EXONUCLEASE 1, 2
Bpl_scaf_45868-0.17SULFOTRANSFERASE SULT
Bpl_scaf_45868-0.18CDK-ACTIVATING KINASE ASSEMBLY FACTOR MAT1
Bpl_scaf_45868-0.19TRNA METHYLTRANSFERASE
Bpl_scaf_45868-1.16GALECTIN
Bpl_scaf_45868-1.7POTASSIUM CHANNEL, SUBFAMILY K
Bpl_scaf_45868-1.8LEUCINE-RICH REPEAT-CONTAINING

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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