PRJNA852380 (vibrio_24h) RefSeq functional annotations

Descriptions and gene biotypes come directly from GCF_963853765.1 / RS_2024_06. This is annotation and ranking, not ontology or pathway enrichment.

Vibrio 24H Higher Fdr Lt 0.05

Genes: 1,816; RefSeq-characterized descriptions: 1,561 (86.0%).

  • LOC105349071 (NCBI:GeneID:105349071): arylsulfatase B (log2FC=3.00; adjusted p=7.77e-49)
  • LOC105345603 (NCBI:GeneID:105345603): putative peptidyl-prolyl cis-trans isomerase (log2FC=1.82; adjusted p=2.79e-37)
  • LOC105321376 (NCBI:GeneID:105321376): EF-hand calcium-binding domain-containing protein 1 (log2FC=5.01; adjusted p=3.53e-37)
  • LOC105319128 (NCBI:GeneID:105319128): chromobox protein homolog 8 (log2FC=2.42; adjusted p=2.18e-30)
  • LOC105332697 (NCBI:GeneID:105332697): midasin (log2FC=1.59; adjusted p=1.02e-27)
  • LOC105334682 (NCBI:GeneID:105334682): kelch-like protein 24 (log2FC=1.13; adjusted p=3.69e-26)
  • LOC105327361 (NCBI:GeneID:105327361): protein arginine N-methyltransferase 1 (log2FC=1.54; adjusted p=5.55e-22)
  • LOC105323667 (NCBI:GeneID:105323667): metalloproteinase inhibitor 2-like (log2FC=1.70; adjusted p=5.55e-22)
  • LOC105339979 (NCBI:GeneID:105339979): 26S proteasome non-ATPase regulatory subunit 2 (log2FC=1.22; adjusted p=2.09e-21)
  • LOC105320719 (NCBI:GeneID:105320719): melatonin receptor type 1A-like (log2FC=1.64; adjusted p=2.78e-21)
  • LOC105321089 (NCBI:GeneID:105321089): purine nucleoside phosphorylase (log2FC=2.25; adjusted p=4.13e-21)
  • LOC105317885 (NCBI:GeneID:105317885): U5 small nuclear ribonucleoprotein 200 kDa helicase (log2FC=0.94; adjusted p=2.19e-20)
  • LOC105323946 (NCBI:GeneID:105323946): Krueppel-like factor 5 (log2FC=1.54; adjusted p=2.41e-20)
  • LOC105340188 (NCBI:GeneID:105340188): methylenetetrahydrofolate reductase (NADPH) (log2FC=1.62; adjusted p=3.49e-20)
  • LOC105339951 (NCBI:GeneID:105339951): eukaryotic translation initiation factor 3 subunit A (log2FC=0.88; adjusted p=2.61e-19)

Vibrio 24H Lower Fdr Lt 0.05

Genes: 1,480; RefSeq-characterized descriptions: 970 (65.5%).

  • LOC105349013 (NCBI:GeneID:105349013): superoxide dismutase [Cu-Zn]-like (log2FC=-4.07; adjusted p=1.34e-76)
  • LOC105347348 (NCBI:GeneID:105347348): microtubule-associated protein futsch (log2FC=-1.27; adjusted p=1.27e-20)
  • LOC105336931 (NCBI:GeneID:105336931): sulfotransferase 2A1 (log2FC=-2.01; adjusted p=4.84e-18)
  • LOC105345294 (NCBI:GeneID:105345294): neprilysin (log2FC=-1.48; adjusted p=3.57e-16)
  • LOC105322541 (NCBI:GeneID:105322541): receptor-type tyrosine-protein phosphatase mu (log2FC=-1.05; adjusted p=1.17e-15)
  • LOC105340925 (NCBI:GeneID:105340925): maltase A3 (log2FC=-1.35; adjusted p=1.64e-14)
  • LOC105317298 (NCBI:GeneID:105317298): SCO-spondin (log2FC=-0.79; adjusted p=5.18e-14)
  • LOC105347264 (NCBI:GeneID:105347264): protein O-GlcNAcase (log2FC=-0.60; adjusted p=7.25e-14)
  • LOC105341812 (NCBI:GeneID:105341812): aquaporin-1 (log2FC=-1.37; adjusted p=1.73e-13)
  • LOC105325936 (NCBI:GeneID:105325936): leucine-rich repeat-containing G-protein coupled receptor 5 (log2FC=-1.05; adjusted p=2.21e-13)
  • LOC117682859 (NCBI:GeneID:117682859): alpha-2 adrenergic receptor (log2FC=-2.37; adjusted p=3.93e-13)
  • LOC105341789 (NCBI:GeneID:105341789): papilin (log2FC=-0.84; adjusted p=6.35e-13)
  • LOC105339840 (NCBI:GeneID:105339840): sodium-independent sulfate anion transporter (log2FC=-1.34; adjusted p=8.48e-13)
  • LOC105342436 (NCBI:GeneID:105342436): carbohydrate deacetylase (log2FC=-1.59; adjusted p=8.78e-13)
  • LOC105325920 (NCBI:GeneID:105325920): E3 ubiquitin-protein ligase rnf213-alpha (log2FC=-1.40; adjusted p=2.67e-12)

Gene-biotype over-representation

One-sided hypergeometric tests compare each significant direction with all genes having DESeq2 results; Benjamini-Hochberg adjustment covers both directions and all biotypes.

  • vibrio 24h higher fdr lt 0.05: protein_coding (1761 observed, 1649.8 expected; fold=1.07; adjusted p=5.58e-26)
  • vibrio 24h lower fdr lt 0.05: protein_coding (1394 observed, 1344.5 expected; fold=1.04; adjusted p=3.21e-06)

Many oyster loci retain automated or uncharacterized RefSeq labels. Functional claims should be based on formal ontology/pathway enrichment or orthology-aware analysis rather than names alone.