ArticleScientific data2023
MarFERReT, an open-source, version-controlled reference library of marine microbial eukaryote functional genes.
Article in Scientific data, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 21 citations in OpenAlex.
- Conserved pathway for homarine catabolism in environmental bacteria.Nature microbiology · 2026Article
- Balancing photosynthesis and respiration in North Pacific protist communities.The ISME journal · 2026Article
- Metatranscriptomics reveals protistan and viral metabolic reprogramming of sinking particle microbiomes in Oyashio waters.ISME communications · 2026Article
- Microbial Omics.Progress in molecular and subcellular biology · 2026Review
- Unexpected microbial rhodopsin dynamics in sync with phytoplankton blooms.Nature communications · 2025Article
- Article
- A curated protein dataset for taxonomic classification of Prochlorococcus and Synechococcus in metagenomes.Scientific data · 2025Article
- Environmental adaptations in metagenomes revealed by deep learning.BMC biology · 2025Article
- Microbial functional diversity and redundancy: moving forward.FEMS microbiology reviews · 2025Review
- Proportional relationship between transcript concentrations and carbon biomass for open ocean plankton groups.The ISME journal · 2025Article
- Latitude- and depth-driven divergence in protist trophic strategies revealed by a machine learning model.Frontiers in microbiology · 2025Article
- The North Pacific Eukaryotic Gene Catalog of metatranscriptome assemblies and annotations.Scientific data · 2024Article
- Digital Microbe: a genome-informed data integration framework for team science on emerging model organisms.Scientific data · 2024Article
- First regional reference database of northern Adriatic diatom transcriptomes.Scientific reports · 2024Article
- MarFERReT, an open-source, version-controlled reference library of marine microbial eukaryote functional genes.Scientific data · 2023Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Metatranscriptomics generates large volumes of sequence data about transcribed genes in natural environments. Taxonomic annotation of these datasets depends on availability of curated reference sequences. For marine microbial eukaryotes, current reference libraries are limited by gaps in sequenced organism diversity and barriers to updating libraries with new sequence data, resulting in taxonomic annotation of about half of eukaryotic environmental transcripts. Here, we introduce Marine Functional EukaRyotic Reference Taxa (MarFERReT), a marine microbial eukaryotic sequence library designed for use with taxonomic annotation of eukaryotic metatranscriptomes. We gathered 902 publicly accessible marine eukaryote genomes and transcriptomes and assessed their sequence quality and cross-contamination issues, selecting 800 validated entries for inclusion in MarFERReT. Version 1.1 of MarFERReT contains reference sequences from 800 marine eukaryotic genomes and transcriptomes, covering 453 species- and strain-level taxa, totaling nearly 28 million protein sequences with associated NCBI and PR
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.