OOIR: Observatory of International Research

Papers

(The median citation count of Marine Genomics is 2. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-04-01 to 2024-04-01.)

Article	Citations
t-Distributed Stochastic Neighbor Embedding (t-SNE): A tool for eco-physiological transcriptomic analysis	109
Improved genomic resources for the black tiger prawn (Penaeus monodon)	23
The genome of Ectocarpus subulatus – A highly stress-tolerant brown alga	23
New bacterial and archaeal lineages discovered in organic rich sediments of a large tropical Bay	22
The genome of the sea anemone Actinia equina (L.): Meiotic toolkit genes and the question of sexual reproduction	17
Seasonal gene expression profiling of Antarctic krill in three different latitudinal regions	14
Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters	12
A review of the potential genes implicated in follicular atresia in teleost fish	12
Genomic differences within the phylum Marinimicrobia: From waters to sediments in the Mariana Trench	12
Comparative de novo assembly and annotation of mantle tissue transcriptomes from the Mytilus edulis species complex (M. edulis, M. galloprovincialis, M. trossulus)	11
Metagenomic profiling of host-associated bacteria from 8 datasets of the red alga Porphyra purpurea with MetaPhlAn3	11
Transcriptomic analysis of brine shrimp Artemia franciscana across a wide range of salinities	10
Complete genome sequence of Bacillus sp. N1-1, a κ-selenocarrageenan degrading bacterium isolated from the cold seep in the South China Sea	10
Complete genome sequence of an Arctic Ocean bacterium Shewanella sp. Arc9-LZ with capacity of synthesizing silver nanoparticles in darkness	10
Genomic characterization of filamentous phage vB_VpaI_VP-3218, an inducible prophage of Vibrio parahaemolyticus	10
The Atlantic salmon whole blood transcriptome and how it relates to major locus maturation genotypes and other tissues	9
Complete genome sequence of Streptomyces sp. SCSIO 03032 isolated from Indian Ocean sediment, producing diverse bioactive natural products	9
De novo transcriptome assembly of the Southern Ocean copepod Rhincalanus gigas sheds light on developmental changes in gene expression	8
Transcriptome expression profiles between diploid and triploid Pacific abalone (Haliotis discus hannai) juveniles in response to acute heat-stress and hypoxia treatments	7
Looking for the hidden: Characterization of lysogenic phages in potential pathogenic Vibrio species from the North Sea	7
Aquaculture omics: An update on the current status of research and data analysis	7
First de novo transcriptome assembly of Iwagaki oyster, Crassostrea nippona, and comparative evolutionary analysis of salinity-stress response genes in Crassostrea oysters	7
Genome sequencing and analysis of a psychrotrophic methanogen Methanosarcina sp. nov. MSH10X1 cultured from methane hydrate deposits of Krishna Godavari Basin of India	7
Transcriptome profiling of the early developmental stages in the giant mussel Choromytilus chorus exposed to delousing drugs	7
Complete genome sequence of Marinobacter sp. LQ44, a haloalkaliphilic phenol-degrading bacterium isolated from a deep-sea hydrothermal vent	7

Complete genome sequence of Methanofervidicoccus sp. A16, a thermophilic methanogen isolated from Mid Cayman Rise hydrothermal vent	7
Complete genome sequence of Acinetobacter baumanni J1, a quorum sensing-producing algicidal bacterium, isolated from Eastern Pacific Ocean	7
Complete genome sequence of Desulfobacter hydrogenophilus AcRS1	7
The isolation and genome sequencing of a novel cyanophage S-H68 from the Bohai Sea, China	6
First transcriptome assembly of a newly discovered vent mussel, Gigantidas vrijenhoeki, at Onnuri Vent Field on the northern Central Indian Ridge	6
Phylotranscriptomics confirms Alveopora is sister to Montipora within the family Acroporidae	6
De novo assembly and functional annotation of the heart + hemolymph transcriptome in the Caribbean spiny lobster Panulirus argus	6
Genome analysis of a new biosurfactants source: The Antarctic bacterium Psychrobacter sp. TAE2020	6
Metagenomic and Recombination Analyses of Antimicrobial Resistance Genes from Recreational Waters of Black Sea Coastal Areas and Other Marine Environments Unveil Extensive Evidence for Their both Intr	6
Genomic insights into antioxidant activities of Pyruvatibacter mobilis CGMCC 1.15125T, a pyruvate-requiring bacterium isolated from the marine microalgae culture	6
Effects of sampling and storage procedures on 16S rDNA amplicon sequencing results of kelp microbiomes	6
Complete genome sequence of Echinicola rosea JL3085, a xylan and pectin decomposer	6
Transcriptomic responses of saline-adapted Nile tilapia (Oreochromis niloticus) to rearing in both saline and freshwater	6
A first genomic portrait of the Florida stone crab Menippe mercenaria: Genome size, mitochondrial chromosome, and repetitive elements	6
Microscopic ossicle analyses and the complete mitochondrial genome sequence of Holothuria (Roweothuria) polii (Echinodermata; Holothuroidea) provide new information to support the phylogenetic positio	6
Comparative genomics and signatures of selection in North Atlantic eels	5
Complete genome sequence of a piezophilic bacterium Salinimonas sediminis N102T, isolated from deep-sea sediment of the New Britain Trench	5
Complete genome sequence of Paracoccus sp. Arc7-R13, a silver nanoparticles synthesizing bacterium isolated from Arctic Ocean sediments	5
Benefits of merging paired-end reads before pre-processing environmental metagenomics data	5
A comprehensive non-redundant reference transcriptome for the Atlantic silverside Menidia menidia	5
Regulation of globin expression in Antarctic fish under thermal and hypoxic stress	5
Genome sequence of an obligate hydrocarbonoclastic bacterium Alcanivorax marinus NMRL4 isolated from oil polluted seawater of the Arabian Sea	5
De novo transcriptome sequencing of triton shell Charonia lampas sauliae: Identification of genes related to neurotoxins and discovery of genetic markers	5
Bimodal distribution of seafloor microbiota diversity and function are associated with marine aquaculture	4
Complete genome of Sulfitobacter sp. BSw21498 isolated from seawater of Arctic Kongsfjorden	4
De novo transcriptome sequencing of the thecate colonial hydrozoan, Dynamena pumila	4
Complete genome sequence of a high cesium ion- tolerating bacterium Bacillus sp. Cs-700 isolated from the South China Sea sediment	4
Transcriptomic response of intertidal brittle star Ophiothrix exigua to seasonal variation	4
The complete genome of extracellular protease-producing Deinococcus sp. D7000 isolated from the hadal region of Mariana Trench Challenger Deep	4
Genome analysis of Crassaminicella sp. SY095, an anaerobic mesophilic marine bacterium isolated from a deep-sea hydrothermal vent on the Southwest Indian Ridge	4
De novo assembly and annotation of the transcriptome of Astyanax lacustris liver unveil candidate genes to monitor response to environmental stress	4
Genome sequence of five Zetaproteobacteria metagenome-assembled genomes recovered from hydrothermal vent Longqi, Southwest Indian Ridge	4
Genome sequencing and comparative genomics analysis of Halomonas sp. MT13 reveal genetic adaptation to deep-sea environment	4
Genomic analysis of Microbacterium sediminis YLB-01T reveals backgrounds related to its deep-sea environment adaptation	4
The first transcriptomic resource for the flatworm Triaenophorus nodulosus (Cestoda: Bothriocephalidea), a common parasite of holarctic freshwater fish	4
Metataxanomic, bioactivity and microbiome analysis of Red Sea marine sponges from Egypt	3
Sex-specific gene expression differences in reproducing Syllis prolifera and Nudisyllis pulligera (Annelida, Syllidae)	3
RNA-seq analysis of the mantle transcriptome from Mytilus edulis during a seasonal spawning event in deep and shallow water culture sites on the northeast coast of Newfoundland, Canada	3
Complete genome sequence of Pseudoalteromonas sp. Xi13 capable of degrading κ-selenocarrageenan isolated from the floating ice of Southern Ocean	3
Complete genome sequence of Marinomonas arctica BSI20414, a giant antifreeze protein-producing bacterium isolated from Arctic sea ice	3
Complete genome sequence of Metabacillus sp. cB07, a bacterium inducing settlement and metamorphosis of coral larvae	3
Skin distress associated with xenobiotics exposure: An epigenetic study in the Mediterranean fin whale (Balaenoptera physalus)	3
Complete genome sequence of a psychrotolerant and piezotolerant bacterium Parasedimentitalea marina W43T, isolated from deep sea water of the New Britain trench	3
Complete genome of Polaromonas vacuolata KCTC 22033T isolated from beneath Antarctic Sea ice	3
Complete genome of Mycetocola spongiae MSC19T isolated from deep-sea sponge Cacospongia mycofijiensis indicates the adaptation to deep-sea environment and sponge-microbe symbioses	3
Whole metagenomic sequencing to characterize the sediment microbial community within the Stellwagen Bank National Marine Sanctuary and preliminary biosynthetic gene cluster screening of Streptomyces s	3
Amplicon sequence variant-based meiofaunal community composition revealed by DADA2 tool is compatible with species composition	3
Complete genome sequence of Alteromonas pelagimontana 5.12T, a marine exopolysaccharide-producing bacterium isolated from hydrothermally influenced deep-sea sediment of eastern Southwest Indian Ridge	3
Transcriptome responses in copepods Calanus finmarchicus, Calanus glacialis and Calanus hyperboreus exposed to phenanthrene and benzo[a]pyrene	3
Iso-Seq assembly and functional annotation of full-length transcriptome of turbot (Scophthalmus maximus) during bacterial infection	3

Complete genome analysis of Bacillus subtilis TY-1 reveals its biocontrol potential against tobacco bacterial wilt	3
Whole-genome sequencing of Pseudomonas sp. TAE6080, a strain capable of inhibiting Staphylococcus epidermidis biofilm	3
The chloroplast genome sequence of the green macroalga Caulerpa okamurae (Ulvophyceae, Chlorophyta): Its structural features, organization and phylogenetic analysis	3
Complete genome sequence of a tellurate reducing bacteria Sporosarcina sp. Te-1 isolated from Bohai Sea	3
Complete genome sequence of a denitrifying bacterium Halomonas sp. SS10-MC5 isolated from hydrothermal vent of Indian Ocean	3
The complete genome sequence of Pseudomonas chengduensis BC1815 for genome mining of PET degrading enzymes	3
Complete genome sequence of Halomonas boliviensis strain kknpp38, a chlorine-resistant bacterium isolated from the early-stage marine biofilm	3
De novo transcriptome assembly for Pachygrapsus marmoratus, an intertidal brachyuran crab	3
Metagenome-based analysis of carbon-fixing microorganisms and their carbon-fixing pathways in deep-sea sediments of the southwestern Indian Ocean	3
Complete genome sequence of a nitrate reducing bacteria, Algoriphagus sp. Y33 isolated from the water of the Indian Ocean	3
Transcriptomic analysis of Nodal – and BMP- associated genes during development to the juvenile seastar in Parvulastra exigua (Asterinidae)	3
Complete genome sequence of Kordiimonas pumila N18T sheds light on biogeochemical roles of the genus Kordiimonas	3
Full-length transcriptome analysis of Misgurnus anguillicaudatus	3
Characterization of Chaetoceros lorenzianus-infecting DNA virus-derived promoters of genes from open reading frames of unknown function in Phaeodactylum tricornutum	2
First certain record of Demospongiae class (Porifera) alien species from the Mediterranean Sea	2
Bioactivity of bacteria associated with Red Sea nudibranchs and whole genome sequence of Nocardiopsis dassonvillei RACA-4	2
Complete genome sequencing and analysis revealed the nitrogen utilization strategy of a novel Acuticoccus species isolated from surface water of the Indian Ocean	2
Complete genome sequence of Shewanella marisflavi ECSMB14101, a red pigment synthesizing bacterium isolated from the East China Sea	2
Complete genome sequence of Neptunomonas concharum JCM17730T: An acetate assimilating bacterium isolated from a dead ark clam	2
Genome analysis of Thermosulfuriphilus ammonigenes ST65T, an anaerobic thermophilic chemolithoautotrophic bacterium isolated from a deep-sea hydrothermal vent	2
Complete genome sequence of Exiguobacterium mexicanum A-EM, isolated from seafloor hydrothermal vents in Atlantic Ocean	2
Complete genome of Mycolicibacterium phocaicum RL-HY01, a PAEs-degrading marine bacterial strain isolated from Zhanjiang Bay, China	2
Genome analysis of the heterotrophic microalga Thraustochytrium sp. TN22 to identify genes involved in exopolysaccharide and carotenoid biosynthesis pathways	2
De novo transcriptome assembly, functional annotation and characterization of the Atlantic bluefin tuna (Thunnus thynnus) larval stage	2
Complete genome sequence of Crassaminicella sp. 143-21，isolated from a deep-sea hydrothermal vent	2
Complete genome sequence of Bacillus cereus Z4, a biocontrol agent against tobacco black shank, isolated from the Western Pacific Ocean	2
De novo assembly and annotation of the transcriptome of the endangered seagrass Zostera capensis: Insights from differential gene expression under thermal stress	2
Large-scale analysis of zebrafish (Danio rerio) transcriptomes identifies functional modules associated with phenotypes	2
Complete genome sequence of Thermosulfurimonas marina SU872T, an anaerobic thermophilic chemolithoautotrophic bacterium isolated from a shallow marine hydrothermal vent	2
Iso-seq analysis and functional annotation of the Santa Fe cave crayfish (Procambarus erythrops) transcriptome	2
Complete genome sequence of marine Roseobacter lineage member Monaibacterium sp. ALG8 with six plasmids isolated from seawater around brown algae	2