BioMed Research International / 2017 / Article / Tab 2

Research Article

Mining of Microbial Genomes for the Novel Sources of Nitrilases

Table 2

Prediction of ORFs length in the individual scaffold for prediction of coding sequence for nitrilase using IMG/ER.

Name of organismScaffold or genome length (bp) with accession numberTotal number of ORF’s predicted in scaffold of complete genomePredicted coding region for nitrilaseNumber of
base-pairs

Acaryochloris marina
MBIC11017
NC_009925
(6503724 bp)
152200001–200999999

Acetobacter pasteurianus
IFO 3283-32
AP011157
(191443 bp)
120174107–173133974

Achromobacter xylosoxidans
A8
NC_014640
(7013095 bp)
406200001–200960960

Acidovorax avenae avenae
ATCC 19860
NC_015138
(5482170 bp)
188201035–2000011035

Acidothermus cellulolyticus
11B
NC_008578
(2443540 bp)
403200001–2011311131

Acidaminococcus fermentans
VR4
NC_013740
(2329769 bp)
293200924–200001924

Alcanivorax dieselolei
B5
CP003466
(4928223 bp)
343200001–200981981

Arthrobacter aurescens
TC1
NC_008711
(4597686 bp)
385200001–200930930

Azorhizobium caulinodans
ORS 571
NC_009937
(5369772 bp)
26289665–885801083

Azospirillum sp.
B510
NC_013854
(3311395 bp)
402200001–200921921

Bacillus pumilus
SAFR-032
NC_009848
(3704465 bp)
73201026–2000011026

Bradyrhizobium japonicum
USDA 110
NC_004463
(9105828 bp)
387200001–200966966

Bradyrhizobium sp.  
BTAi1
NC_009485
(8264687 bp)
392201146–2000011146

Bradyrhizobium sp.  
ORS278
NC_009445
(7456587 bp)
395201041–2000011041

Brevibacillus brevis
NBRC 100599
NC_012491
(6296436 bp)
182200001–200960960

Flavobacterium indicum
GPTSA100-9
HE774682
(2993089 bp)
317200001–200981981

Saccharomonospora viridis
P101
NC_013159
(4308349 bp)
315200001–200996996

Sphingopyxis alaskensis
DSM13593
NC_008048
(3345170 bp)
387200001–2010171017

Burkholderia cenocepacia
J2315
NC_011000
(3870082 bp)
393199944–2010501050

Burkholderia glumae
BGR1
NC_012720
(141067 bp)
15447491–484771017

Burkholderia gladioli
BSR3
NC_015376
(3700833 bp)
338200001–2010141014

Burkholderia phymatumNC_010623
(2697374 bp)
375199971–2010231023

Burkholderia phytofirmansNC_010681
(4467537 bp)
357200001–2010351035

Burkholderia sp.  
CCGE1002
NC_014119
(1282816 bp)
28072013–730411020

Burkholderia sp.  
CCGE1003
NC_014540
(2966498 bp)
344200019–2010411022

Burkholderia vietnamiensis G4NC_009254
(1241007 bp)
436199986–2010231037

Burkholderia xenovorans
LB400
NC_007951
(4895836 bp)
396200001–200996996

Caulobacter sp. K31NC_010335
(233649 bp)
219180936–181871935

Chlorobium phaeobacteroides
BS1
NC_010831
(2736403 bp)
382200001–200936936

Clostridium difficile 630NC_009089
(4290252 bp)
364200001–200927927

Clostridium difficile
CD196
NC_013315
(4110554 bp)
308200001–200927927

Clostridium difficile
R20291
NC_013316
(4191339 bp)
329200001–200927927

Clostridium kluyveri
NBRC 12016
NC_011837
(3896121 bp)
442200001–200930957

Clostridium kluyveri
ATCC 8527
NC_009706
(3964618 bp)
491200001–200930930

Conexibacter woesei
DSM 14684
NC_013739
(6359369 bp)
388200001–200942942

Cupriavidus necator
ATCC 17699
NC_008313
(4052032 bp)
318200001–2010171017

Cupriavidus necator
ATCC 43291
NC_015726
(3872936 bp)
318200001–2010171017

Cyanobium gracile
ATCC 27147
Cyagr_Contig81
(3342364 bp)
405200001–200999999

Deinococcus deserti
(strain VCD115)
NC_012529
(314317 bp)
269200001–200951951

Deinococcus peraridilitoris
DSM 19664
Deipe_Contig72.1
(3881839 bp)
412200001–200951951

Desulfomonile tiedjei
ATCC 49306
Desti_Contig107.1
(6500104 bp)
379200001–2010291029

Dickeya zeae Ech1591NC_012912
(4813854 bp)
194200001–200927927

Erwinia billingiae Eb661NC_014305
(169778 bp)
19487964–889651001

Erythrobacter litoralis
HTCC2594
NC_007722
(3052398 bp)
411200001–200969969

Flavobacterium indicum
DSM 17447
HE774682
(2993089 bp)
317200001–200981981

Frateuria aurantia
ATCC 33424
Fraau_Contig24.1
(3603458 bp)
366200001–200924924

Geobacillus sp.  
Y4.1MC1
NC_014650
(3840330 bp)
434200001–200966966

Geobacillus thermoglucosidasius
C56-YS93
NC_015660
(3893306 bp)
446200001–200966966

Geodermatophilus obscurus
DSM 43160
NC_013757
(5322497 bp)
24454102–54884783

Gluconacetobacter diazotrophicus
ATCC 49037
NC_010125
(3944163 bp)
333200001–200960960

Haliangium ochraceum
DSM 14365
CP002175
(2309262 bp)
377200001–200957957

Halanaerobium praevalens
ATCC 33744
NC_013440
(9446314 bp)
262200001–200999999

Hyphomicrobium sp.  
MC1
NC_015717
(4757528 bp)
392200001–200984984

Janthinobacterium sp.  
Marseille
NC_009659
(4110251 bp)
398200001–2010681068

Jannaschia sp.  
CCS1
NC_007802
(4317977 bp)
382200001–2010261026

Maricaulis maris
MCS10
NC_008347
(3368780 bp)
392200001–200933933

Methylobacterium extorquens CM4NC_011758
(380207 bp)
2117191–82671077

Methylobacterium extorquens
ATCC 14718
NC_012811
(1261460 bp)
436200001–2010771077

Methylobacterium extorquens DM4NC_012988
(5943768 bp)
378200001–200918918

Methylobacterium extorquens PA1NC_010172
(5471154 bp)
354200001–2011101110

Methylomonas methanica
MC09
Contig38
(5051681 bp)
402200001–200996996

Methylobacterium nodulans ORS2060NC_011892
(487734 bp)
425200001–2011161116

Methylobacterium populi
ATCC BAA-705
NC_010725
(5800441 bp)
19361617–626931077

Methylibium petroleiphilum PM1NC_008825
(4044195 bp)
364200001–2010741074

Methylobacterium radiotolerans
ATCC 27329
NC_010505
(6077833 bp)
377200001–2010771077

Methylocella silvestris
BL2
NC_011666
(4305430 bp)
439199971–2010291029

Mycobacterium intracellulare
ATCC 13950
CP003322
(5402402 bp)
383199938–200897897

Mycobacterium liflandii
128FXT
CP003899
(6208955 bp)
405200001–2010591059

Mycobacterium rhodesiae NBB3MycrhN_Contig54.1
(6415739 bp)
267200001–200957957

Mycobacterium smegmatis
ATCC 700084
CP001663
(6988208 bp)
377200001–200978978

Natranaerobius thermophilus
ATCC BAA-1301
NC_010718
(3165557 bp)
387200001–200930930

Nocardia farcinica
IFM 10152
NC_006361
(6021225 bp)
390198993–199811818

Nocardiopsis dassonvillei
DSM 43111
NC_014211
(775354 bp)
353201134–200001843

Oligotropha carboxidovorans
ATCC 49405
CP002826
(3595748 bp)
372200001–2010651065

Pantoea sp. At-9bNC_014839
(394054 bp)
349114577–1155811005

Peptoniphilus duerdenii
ATCC BAA-1640
NZ_AEEH01000050
(96694 bp)
8052942–53863921

Photorhabdus asymbiotica
ATCC 43949
NC_012962
(5064808 bp)
338200001–2010501050

Pirellula staleyi
ATCC 27377
NC_013720
(6196199 bp)
338200001–200909909

Polaromonas naphthalenivorans
CJ2
NC_008781
(4410291 bp)
389200001–2010411062

Polaromonas sp. JS666NC_007948
(5200264 bp)
398200001–200942942

Pseudomonas syringae pv. lachrymans
M302278PT
Lac106_115287.20
(115287 bp)
10747704–487471043

Pseudoalteromonas atlantica
ATCC BAA-1087
NC_008228
(5187005 bp)
397200001–200921921

Pseudomonas aeruginosa
P7-L633/96
Ga0060317_132
(369634 bp)
27091986–92801816

Pseudomonas brassicacearum
NFM421
NC_015379
(6843248 bp)
377200001–2010261026

Pseudomonas sp. TJI-51AEWE01000051
(6502 bp)
051482–24981017

Pseudomonas fluorescens
Pf-5
NC_007492
(6438405 bp)
349200001–200924924

Pseudomonas fluorescens
SBW25
NC_012660
(6722539 bp)
376200043–200930888

Pseudomonas mendocina
NK-01
NC_015410
(5434353 bp)
376200001–200883883

Pseudomonas syringae
pv. tomato DC 3000
PSPTOimg_DC3000
(6397126 bp)
377200001–2010111011

Pseudomonas syringae
pv. syringae B728a
NC_007005
(6093698 bp)
1968233–9231999

Pseudoxanthomonas suwonensis11-1NC_014924
(3419049 bp)
362200001–200885885

Pseudonocardia dioxanivorans
ATCC 55486
CP002593
(7096571 bp)
386200001–2010081008

Ralstonia solanacearum
GMI1000
NC_003295
(3716413 bp)
343200001–2010321032

Rhizobium hainanense
CCBAU 57015
Ga0061100_113
(148344 bp)
14661240–622801040

Rhizobium leguminosarum bv. Viciae 3841NC_008380
(5057142 bp)
397200001–2010471047

Rhizobium leguminosarum bv. trifolii
WSM1325
NC_012850
(4767043 bp)
21018450–19442993

Rhodopseudomonaspalustris
TIE-1
NC_011004
(5744041 bp)
387199980–2010501070

Rhodopseudomonas palustris
DX-1
NC_014834
(5404117 bp)
390200001–200954954

Rubrobacter xylanophilus
DSM 9941
NC_008148
(3225748 bp)
385200001–2010801080

Ruegeria pomeroyi
ATCC 700808
NC_006569
(491611 bp)
308118859–1198931035

Runella slithyformis
ATCC 29530
Unknown
(6568739 bp)
362200001–200933933

Saccharothrix espanaensis
ATCC 51144
HE804045
(9360653 bp)
347200001–2010201020

Saccharomonospora viridis ATCC 15386NC_013159
(4308349 bp)
315200001–200996996

Shewanella halifaxensis
HAW-EB4
NC_010334
(5226917 bp)
337200001–200945945

Shewanella pealeana
ATCC 700345
NC_009901
(5174581 bp)
333200001–200945945

Shewanella sediminis 
HAW-EB3
NC_009831
(5517674 bp)
337200001–200954954

Shewanella violacea
JCM 1017
NC_014012
(4962103 bp)
307200001–200936936

Shewanella woodyi
ATCC 51908
NC_010506
(5935403 bp)
327200001–2010051005

Shimwellia blattae
ATCC 29907
EBLc (4158725 bp)376200001–2010291029

Singulisphaera acidiphila
ATCC 1392
Sinac_Contig49.1
(9629675 bp)
337200001–2010141014

Sorangium cellulosum Soce56NC_010162
(13033779 bp)
329200001–2010291029

Sphingopyxis alaskensis
DSM 13593
NC_008048
(3345170 bp)
387200001–2010171016

Sphaerobacter thermophilus
DSM 20745
NC_013524
(1252731 bp)
335200097–201092995

Sphingomonas wittichii
RW1
NC_009511
(5382261 bp)
354200001–2010261026

Spirosoma linguale
ATCC 33905
NC_013730
(8078757 bp)
339200001–200906906

Starkeya novella
ATCC 8093
NC_007604
(2695903 bp)
402200001–2010051005

Streptomyces albus J1074CP004370
(6841649 bp)
2521635309–1636256948

Synechococcus elongatus
PCC 7942
NC_007604
(2695903 bp)
402200001–2010051005

Syntrophobacter fumaroxidans
DSM 10017
NC_008554
(4990251 bp)
337200001–200987987

Synechococcus sp.  
ATCC 27264
NC_010475
(3008047 bp)
431200001–2010081008

Synechococcus elongatus
PCC 6301
NC_006576
(2696255 bp)
402200001–2010051005

Synechococcus sp.
PCC 7002
NC_010475
(3008047 bp)
431200001–2010081008

Synechococcus sp.  
WH8102
NC_005070
(2434428 bp)
537200001–2010171017

Synechocystis sp.CP003265
(3569561 bp)
371200001–2010261026

Synechocystis sp.  
PCC 6803
NC_017052
(3570103 bp)
374200001–2010261026

Terriglobus roseus
KBS 63
Terro_Contig51.1
(5227858 bp)
354200001–200873873

Tistrella mobilis
KA081020-065
CP003239
(1126962 bp)
379200001–2010771077

Variovorax paradoxus (strain EPS)NC_014931
(6550056 bp)
360200001–2010351035

Variovorax paradoxus
S110
NC_012791
(5626353 bp)
420200001–2010531053

Verminephrobacter eiseniae EF01-2NC_008786
(5566749 bp)
337200001–2009871020

Zobellia galactanivorans
DSM 12802
FG20DRAFT
(5340688 bp)
331200001–200951951

Zymomonas mobilis subsp. Mobilis
ATCC 10988
NZ_ACQU01000006
(113352 bp)
11382520–83509990