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Paper Information

Title: 

COMPLETE GENOME SEQUENCE OF OCEANIMONAS SP. GK1: A HALOTOLERANT BACTERIUM FROM GAVKHOUNI WETLAND IN IRAN

Type: PAPER
Author(s): PARSA YEGANEH LALEH,AZARBAIJANI REZA,SARIKHAN SAJJAD,MOUSAVI HOSSEIN,RAMEZANI MOHADESEH,AMOOZEGAR MOHAMMAD ALI,SHAHZADEH FAZELI ABOLHASSAN,HOSSEINI SALEKDEH GHASEM
 
 
 
Name of Seminar: CONGRESS OF IRANIAN GENETICS
Type of Seminar:  CONGRESS
Sponsor:  ZAKHAYERE ZHENETICE JAHADE DANESHGAHI
Date:  2014Volume 1
 
 
Abstract: 

HERE WE PRESENT THE WHOLE GENOME SEQUENCE OF OCEANIMONAS SP.GK1 WHICH CONSISTS OF A SINGLE CIRCULAR CHROMOSOME WITH 3514537 BP (CP003171 ACCESSION NO.) AND TWO PLASMIDS WITH 8462 (CP003172 ACCESSION NO.) AND 4245 BP (CP003173 ACCESSION NO.) IN LENGTH.
THE GRAM NEGATIVE ROD-SHAPED OCEANIMONAS SP. GK1 (IBRC-M 10197), ISOLATED FROM GAVKHOUNI WETLAND IN IRAN, BELONGS TO THE AEROMONADACEAE FAMILY. IT IS A MOTILE AEROBIC BACTERIUM WHICH CAN TOLERATE UP TO 12% NACL AND GROWS AT 10- 45OC (OPTIMUM 35OC), PH 6-10 (OPTIMUM 8) AND PRODUCES HIGH AMOUNTS OF PHB (POLY-
B-HYDROXYBUTYRATE) UNDER UNBALANCED GROWTH CONDITIONS AS CARBON AND ENERGY RESERVOIR. THE WHOLE GENOME SEQUENCE OF THIS STRAIN IS THE FIRST REPORT OF COMPLETELY SEQUENCED AND ANNOTATED GENOME FROM THE OCEANIMONAS GENUS.
WHOLE GENOME SEQUENCING OF OCEANIMONAS SP. GK1 WAS PERFORMED ON 454 GS-FLX TITANIUM. IN TOTAL, 93,921,861 BASES OF 247,884 RANDOM READS WITH AVERAGE READ LENGTH OF 378 NUCLEOTIDES WERE OBTAINED. THE APPROXIMATE COVERAGE OF OCEANIMONAS SP. GK1 GENOME WAS 30 FOLD. THE SEQUENCE READS WERE ASSEMBLED INTO 72 CONTIGS USING NEWBLER ASSEMBLER SOFTWARE V. 2.3. PAIRED END SEQUENCING RESULTED IN 3 SCAFFOLDS WITH 47 GAPS. ALL GAPS WERE CLOSED USING SANGER DNA SEQUENCING. THE RAST ANNOTATION PIPELINE WAS USED TO ANNOTATE THE DNA SEQUENCE.
THE COMPLETE GENOME CONTAINED 3338 GENES WITH 111 STRUCTURAL RNAS, 2516 NON-HYPOTHETICAL PROTEIN AND 711 HYPOTHETICAL PROTEIN CODING SEQUENCES. THE GC CONTENT OF THE COMPLETE GENOME WAS 61.1%.
THE OCEANIMONAS SP. GK1 GENOME HAS THE
B-KETOACYL-COA THIOLASE, ACETOACETYL-COA REDUCTASE AND PHB SYNTHASE ENCODED GENES FROM THE THREE–STEP PHB SYNTHESIS PATHWAY. THE INVESTIGATION OF GENOME SEQUENCE SHOWED THE PRESENCE OF ENZYMES INVOLVED IN PHENOL DEGRADATION AND B-KETOADIPATE PATHWAY SUCH AS CATECHOL 1,2- DIOXYGENASE, 3-OXOADIPATE COA-TRANSFERASE (GLUTACONATE COA-TRANSFERASE), MUCONATE CYCLOISOMERASE (EC 5.5.1.1) AND MUCONOLACTONE ISOMERASE (EC 5.3.3.4)

 
Keyword(s): OCEANIMONAS SP. GK1, GENOME SEQUENCING, ANNOTATION, PHB
 
 
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