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
PF12736.4Cell-cycle sustaining, positive selection,Pfam-34expanded0.0003315890.028521994
PF08776.8VASP tetramerisation domainPfam-21expanded0.0003307030.028598719
PF17164.1Domain of unknown function (DUF5122) beta-propellerPfam-18expanded0.0004629590.038784898
PF08706.8D5 N terminal likePfam-18expanded0.0004629590.038987961
PF00619.18Caspase recruitment domainPfam-133expanded0.0004901270.040848114
PF16170.2Domain of unknown function (DUF4873)Pfam-12expanded0.0005278240.042879067
PF02010.12REJ domainPfam-33expanded0.0005199370.04310917
PF00656.19Caspase domainPfam-75expanded0.0005487220.044352715
PF13040.3Fur-regulated basic protein BPfam-15expanded0.0005774240.046208271
PF13011.3leucine-zipper of insertion element IS481Pfam-15expanded0.0005774240.046439312
PF05049.10Interferon-inducible GTPase (IIGP)Pfam-47expanded0.0006123740.048048971
PF11494.5Ta0938Pfam-3contracted1.04E-251.68E-22
PF08648.9Protein of unknown function (DUF1777)Pfam-9contracted9.60E-134.83E-10
PF03154.12Atrophin-1 familyPfam-3contracted1.07E-125.20E-10
PF07454.8Stage II sporulation protein P (SpoIIP)Pfam-0contracted9.70E-070.000165926
PF03896.13Translocon-associated protein (TRAP), alpha subunitPfam-6contracted1.79E-060.000282346
PF07792.9Docking domain of Afi1 for Arf3 in vesicle traffickingPfam-4contracted3.98E-060.000547846
PF06025.9Domain of Unknown Function (DUF913)Pfam-12contracted3.63E-050.004024698
PF01456.14Mucin-like glycoproteinPfam-16contracted5.70E-050.006071024
PF02535.19ZIP Zinc transporterPfam-55contracted6.98E-050.007342803
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