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Table 3 Highly divergent genes on the Nannochloropsis organellar genomes

From: A pangenomic analysis of the Nannochloropsisorganellar genomes reveals novel genetic variations in key metabolic genes

Gene* (Putative) function Closest homolog Query length Subject length Alignment length Identity# E-value
Nsk00019 rps6; 30S ribosomal protein S6 30S ribosomal protein S6 [Thalassiosira pseudonana];|YP_874616.1| 106 103 96 36.5 2.00E-11
Nsk00027 atpD; Atp synthase delta subunit Hypothetical protein MldDRAFT_4321 [delta proteobacterium MLMS-1]; |ZP_01290127.1| 232 331 162 24.7 0.02
Nsk00028 atpF; ATP synthase b subunit CF0 subunit I of ATP synthase [Oltmannsiellopsis viridis]; |YP_635887.1| 155 183 106 33 5.00E-06
Nsk00029 atpG; ATP synthase b’ subunit ATP synthase CF0 subunit II [Vaucheria litorea];|YP_002327468.1| 160 154 145 29.7 7.00E-11
Nsk00053 Hypothetical; putative peroxidase Hypothetical protein tlr1577 [Thermosynechococcus elongatus BP-1];|NP_682367.1| 195 99 54 35.2 0.072
Nsk00055 psb28; photosystem II protein (ycf79) Photosystem II protein W [Guillardia theta]; |NP_050669.1| 113 116 94 30.9 2.00E-04
Nsk00062 ycf4; photosystem I assembly protein Photosystem I assembly protein Ycf4 [Coccomyxa subellipsoidea C-169]; |YP_004222004.1| 195 189 155 29 4.00E-12
Nsk00063 ycf49; DUF2499 Unknown DUF2499 [Picea sitchensis]; |ABK25760.1| 97 216 88 35.2 5.00E-11
Nsk00087 Unknown; ORFan Hypothetical protein SPPN_02855 [Streptococcus pseudopneumoniae IS7493 117 282 85 25.9 0.81
Nsk00113 rpoA; RNA polymerase alpha chain RNA polymerase alpha subunit [Cryptomonas paramecium]; |YP_003359271.1| 447 310 195 34.9 4.00E-14
Nsk00135 ycf34 Chloroplast protein Ycf34 [Gloeobacter violaceus PCC 7421]; |NP_927340.1| 86 80 81 28.4 0.27
Nsk00142 clpN ATP-dependent Clp protease ATP-binding subunit ClpA [Desulfobulbus propionicus DSM 2032; |YP_004196194.1| 149 756 96 29.2 2.4
Nsk00202 Unknown; ORFan Predicted protein with ABC transporter signatures [Fibroporia radiculosa]; |CCM01526.1| 93 613 54 38.9 1.3
Nsk00204 Unknown; ORFan Hyp. periplasmic binding protein MARHY3762 [Marinobacter hydrocarbonoclasticus ATCC 49840]; |YP_005431639.1| 119 404 50 46 1.9
Nsk00206 Unknown; ORFan Coiled-coil domain-containing protein 141 [Nomascus leucogenys]; |XP_003253834.1| 99 1530 59 37.3 5.5
Nsk00212 rps10; 30S ribosomal protein S10 30S ribosomal protein S10 [Spirochaeta smaragdinae DSM 11293]; |YP_003802682.1| 112 102 84 36.9 5.00E-05
Nsk00213 rps11; 30S ribosomal protein S11 30S ribosomal protein S11, partial [uncultured bacterium]; |EKD46317.1| 156 140 110 39.1 2.00E-18
Nsk00217 rps2; 30S ribosomal protein S2 Hypothetical protein [Batrachochytrium dendrobatidis JAM81];|EGF78568.1| 212 195 169 29 5.00E-16
Nsk00218 rps4: 30S ribosomal protein S4 Ribosomal protein S4 [Synedra acus]; |YP_003359457.1| 241 246 176 33.5 4.00E-09
Nsk00219 Unknown; ORFan Hypothetical protein [Trichomonas vaginalis G3]; |XP_001579587.1| 323 744 118 28 1.8
Nsk00222 rpl5; 50S ribosomal protein L5 Ribosomal protein L5 [Thalassiosira pseudonana]; |YP_316605.1| 179 178 176 34.7 8.00E-19
Nsk00231 atp8; ATP synthase F0 subunit 8 ATP synthase F0 subunit 8 [Fucus vesiculosus; |YP_448633.1| 105 53 60 51.7 2.00E-07
Nsk00232 Unknown; ORFan fmhA protein [Staphylococcus saprophyticus ATCC 15305]; |YP_300577.1| 231 410 156 23.08 6.7
Nsk00235 rps13; 30S ribosomal protein S13 NADH dehydrogenase s9- S13 fusion protein [endosymbiont of Durinskia baltica] |gb|AEP20701.1| 118 310 117 41.9 8.00E-18
Nsk00013, Nsk0014, Nsk00150, Nsk00085, Nsk00203, Nsk00223 Unknown; ORFans No homologs - - - - -
  1. *Genes with locus tags that have a numerical value of <200 and > 200 are located on the chloroplast and mitochondrial genomes, respectively. Nsk00013, Nsk0014, Nsk00150, Nsk00085, Nsk00203, Nsk00223 were also identified as highly divergent with no BLASTP hit in the NR database.
  2. #Identity of the aligned amino acids.
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BMC Genomics

ISSN: 1471-2164

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