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Table 2 Preserved mutations happened in coding sequences

From: Adapted laboratory evolution of Thermotoga sp. strain RQ7 under carbon starvation

Site Locus_tag Product and length Base change* Codon change
Indels
 17391 TRQ7_RS00090 Flagellar biosynthesis protein FlhB d11: AAAACAGGAAGT → A Frame shift, truncation
 1006296 TRQ7_RS05035 Alpha-amylase i1: T → TA Frame shift, run-through
 1426409 TRQ7_RS07315 2-hydroxyacid dehydrogenase i1: AG → AGG Frame shift, truncation
SNPs
 205012 TRQ7_RS01075 Methylmalonyl-CoA carboxyltransferase Transversion: G → T Silent: V360
 262000 TRQ7_RS01400 Hypothetical protein Transition: G → A Silent: L346
 323128 TRQ7_RS01715 Queuosine precursor transporter Transition: G → A Silent: T204
 459761 TRQ7_RS02405 Tyrosine-tRNA ligase Transition: C → T Silent: V15
 1724427 TRQ7_RS08830 Alpha-glucuronidase Agu4A Transition: T → C Silent: H107
ABC transporters
 409,563 TRQ7_RS02130 ABC transporter substrate-binding protein Transition: A → G Missense: Q545R
 668132 TRQ7_RS03395 Sugar ABC transporter permease Transition: C → T Missense: A283V
 1046451 TRQ7_RS05215 Sugar ABC transporter ATP-binding protein Transition: C → T Missense: A406V
 1,049,370 TRQ7_RS05225 Sugar ABC transporter substrate-binding protein Transition: C → T Missense: P115S
 1542185 TRQ7_RS07940 ABC transporter ATP-binding protein Transition: C → T Missense: P290S
Stress response
 442230 TRQ7_RS02305 PhoH family protein Transversion: C → A Missense: S123R
 789928 TRQ7_RS04030 Sodium-translocating pyrophosphatase Transversion: C → A Missense: A461E
 993287 TRQ7_RS04975 5'/3'-nucleotidase SurE Transition: C → T Missense: P50L
 1105970 TRQ7_RS05480 Ribose-phosphate pyrophosphokinase Transition: G → A Missense: A83T
 1196396 TRQ7_RS05995 Phosphate signaling complex protein PhoU Transition: G → A Missense: G83S
Sensing and regulation
 856804 TRQ7_RS04355 ROK family transcriptional regulator Transversion: A → C Missense: N12T
 998628 TRQ7_RS05010 Response regulator transcription factor Transversion: C → A Missense: L189M
 1242229 TRQ7_RS06235 Transcriptional repressor Transition: C → T Nonsense: Q9
 1285475 TRQ7_RS06565 RNA polymerase sigma factor RpoD Transition: C → T Missense: L280F
 1618115 TRQ7_RS08290 Sensor domain-containing diguanylate cyclase Transversion: T → A Missense: V390E
Others
 12579 TRQ7_RS00060 Ribonuclease HII Transition: G → A Missense: A237T
 26360 TRQ7_RS00155 Galactose-1-phosphate uridylyltransferase Transition: C → T Missense: P274L
 721511 TRQ7_RS03655 UDP-N-acetylmuramoyl-tripeptide–D-alanyl-D- alanine ligase Transition: G → A Missense: D148N
 731443 TRQ7_RS03700 NADH-quinone oxidoreductase subunit NuoE Transition: C → T Missense: S15L
 1021158 TRQ7_RS05125 Hypothetical protein Transition: G → A Missense: G148D
 1352603 TRQ7_RS06890 Hypothetical protein Transition: G → A Missense: V418I
  1. *d11: deletion of 11 bases; i1: insertion of 1 base