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_1-0.2ALPHA KINASE/ELONGATION FACTOR 2 KINASE
Bpl_scaf_1-0.7ALPHA KINASE/ELONGATION FACTOR 2 KINASE
Bpl_scaf_10008-0.26-
Bpl_scaf_10008-0.27-
Bpl_scaf_10008-0.29-
Bpl_scaf_10008-0.32EGF-LIKE DOMAIN-CONTAINING PROTEIN
Bpl_scaf_10008-0.33-
Bpl_scaf_1001-0.6CEREBELLIN-RELATED
Bpl_scaf_1001-0.7CEREBELLIN-RELATED
Bpl_scaf_10020-0.20XAA-PRO AMINOPEPTIDASE 1
Bpl_scaf_10020-0.23-
Bpl_scaf_10020-0.25-
Bpl_scaf_10020-0.26ANDROGLOBIN
Bpl_scaf_10028-0.14CARBONIC ANHYDRASE
Bpl_scaf_10028-0.17NNMT/PNMT/TEMT FAMILY MEMBER
Bpl_scaf_10028-0.29MITOGEN-ACTIVATED PROTEIN KINASE
Bpl_scaf_10028-0.3SRCR DOMAIN-CONTAINING PROTEIN
Bpl_scaf_10028-0.4SRCR DOMAIN-CONTAINING PROTEIN
Bpl_scaf_10028-0.7-
Bpl_scaf_10036-0.11LYSYL OXIDASE-LIKE-RELATED

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
PF08374.8ProtocadherinPfam-102expanded4.20E-077.95E-05
PF05485.9THAP domainPfam-109expanded4.70E-078.70E-05
PF00071.19Ras familyPfam-316expanded6.46E-070.000116664
PF13857.3Ankyrin repeats (many copies)Pfam-517expanded6.70E-070.000119805
PF14566.3Inositol hexakisphosphatePfam-112expanded8.04E-070.000142086
PF13245.3Part of AAA domainPfam-297expanded9.00E-070.000155622
PF13637.3Ankyrin repeats (many copies)Pfam-521expanded8.92E-070.000155975
PF13837.3Myb/SANT-like DNA-binding domainPfam-72expanded1.25E-060.000211003
PF00023.27Ankyrin repeatPfam-503expanded1.38E-060.000229445
PF05790.12Immunoglobulin C2-set domainPfam-69expanded1.38E-060.000231238
PF01869.17BadF/BadG/BcrA/BcrD ATPase familyPfam-60expanded1.41E-060.000231759
PF00531.19Death domainPfam-155expanded1.71E-060.000275719
PF00657.19GDSL-like Lipase/AcylhydrolasePfam-81expanded1.83E-060.000285785
PF03266.12NTPasePfam-118expanded2.12E-060.000328185
PF13606.3Ankyrin repeatPfam-509expanded2.39E-060.000366023
PF10787.6Uncharacterised protein from bacillus cereus groupPfam-33expanded2.87E-060.000422983
PF00147.15Fibrinogen beta and gamma chains, C-terminal globular domainPfam-206expanded2.86E-060.000426087
PF12796.4Ankyrin repeats (3 copies)Pfam-524expanded2.93E-060.000429064
PF13518.3Helix-turn-helix domainPfam-73expanded3.20E-060.000464417
PF02440.12Adenovirus E3 region protein CR1Pfam-76expanded3.56E-060.000502885
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