New mitochondrial genomes and molecular markers for the coastal diatoms of Korea

Abstract

The Bacillariophyceae is the largest class of the stramenopiles (ca. 11,200 species), and one of the most important and abundant primary producers of the aquatic ecosystem. Diverse diatoms are occurred in inter-tidal mudflats of the west coast of Korea, the Yellow Sea. In spite of ecological importance of the phytoplankton community, there are a little number of molecular markers have been developed, such as nuclear encoded 18S rRNA (SSU) and plastid encoded rbcL. In present study, we determined two new mitochondrial genome (mtDNA) of common tube-dwelling diatoms, Berkeleya fennica TA424 (GenBank accession NC_026126, 35.509 bp) and Navicula ramosissima TA439 (48,652 bp) isolated from the Taean mudflat (36º44′14.79″N 126º10′41.89″E), and one mtDNA of pelagic diatom, Skeletonema marinoi JK029 (NC_028615, 38,515 bp) isolated from an interdidal site of the Sihwaho (37º18′38.91″N 126º36′16.35″E). Complete mtDNA of each species are shows typical bacillariophycean mitochondrial contents, including of 35-42 coding sequences (CDS), 2 ribosomal RNA (rRNA), and 25-26 transfer RNA (tRNA) genes. All CDS of mtDNA aligned with all available diatoms data, including Phaeodactylum tricornutum (NC_016739), Fragilaria acus (NC_013710), and Thalassiosira pseudonana (NC_007405). Based on the saturation test and preliminary sequencing, we suggest mitochondrial markers for diatoms survey on the west coast of Korea.ast of Korea, the Yellow Sea. In spite of ecological importance of the phytoplankton community, there are a little number of molecular markers have been developed, such as nuclear encoded 18S rRNA (SSU) and plastid encoded rbcL. In present study, we determined two new mitochondrial genome (mtDNA) of common tube-dwelling diatoms, Berkeleya fennica TA424 (GenBank accession NC_026126, 35.509 bp) and Navicula ramosissima TA439 (48,652 bp) isolated from the Taean mudflat (36º44′14.79″N 126º10′41.89″E), and one mtDNA of pelagic diatom, Skeletonema marinoi JK029 (NC_028615, 38,515 bp) isolated from an interdidal site of the Sihwaho (37º18′38.91″N 126º36′16.35″E). Complete mtDNA of each species are shows typical bacillariophycean mitochondrial contents, including of 35-42 coding sequences (CDS), 2 ribosomal RNA (rRNA), and 25-26 transfer RNA (tRNA) genes. All CDS of mtDNA aligned with all available diatoms data, including Phaeodactylum tricornutum (NC_016739), Fragilaria acus (NC_013710), and Thalassiosira pseudonana (NC_007405). Based on the saturation test and preliminary sequencing, we suggest mitochondrial markers for diatoms survey on the west coast of Korea.