Research Article

Adaptation, Ecology, and Evolution of the Halophilic Stromatolite Archaeon Halococcus hamelinensis Inferred through Genome Analyses

Table 1

General features of the H. hamelinensis genome.

General featuresNumber

Size (bp)3133046
GC%166.08
RNA genes48
 rRNA genes3
  5 S rRNA1
  16 S rRNA1
  23 S rRNA1
 tRNA genes45
DNA scaffolds223
DNA coding bases2529448
Protein coding genes (PCG): 3150
PCG with known and putative function (%)68.67
PCG with enzymes (%)22.39
PCG with COGs (%)65.13
PCG with Pfam (%)65.98
PCG with TIGRfam (%)19.48
PCG with InterPro (%)87.12
PCG coding signal peptides (%)10.07
PCG coding transmembrane proteins (%)22.48
PCG in paralog clusters (%)20.04
Fused Protein coding genes219
COG clusters1177
KOG clusters635
Pfam clusters1207
TIGRfam clusters539

GC percentage shown as count of G’s and C’s divided by a total number of G’s, C’s, A’s, and T’s. COGs—Clusters of Orthologous Groups of proteins; Pfam—protein family database; TIGRFAMs—resource consisting of curated multiple sequence alignments, Hidden Markov Models for protein sequence classification, and associated information designed to support automated annotation of proteins; KOG—euKaryotic Orthologous Groups.