PMID- 20413241
OWN - NLM
STAT- MEDLINE
DCOM- 20100809
LR  - 20100517
IS  - 1618-0984 (Electronic)
IS  - 0723-2020 (Linking)
VI  - 33
IP  - 4
DP  - 2010 Jun
TI  - Gammaproteobacteria occurrence and microdiversity in Tyrrhenian Sea sediments as 
      revealed by cultivation-dependent and -independent approaches.
PG  - 222-31
LID - 10.1016/j.syapm.2010.02.005 [doi]
AB  - Bacterial diversity in Tyrrhenian Sea sediments was assessed using 
      cultivation-dependent and -independent approaches. Samples collected from the 
      different sediment layers (up to 30cm) relative to four seamount and non-seamount 
      stations, at depths from 3425 to 3580m, were subjected to DNA extraction and 16S 
      rRNA amplification targeting the V3 region. Denaturing gradient gel 
      electrophoresis (DGGE) showed several heterogeneous profiles and 27 single bands 
      were excised and sequenced. Sequence analysis revealed the presence of 
      Firmicutes, Actinobacteria and Chloroflexi in 26% of the DGGE bands and a 
      predominance of sequences affiliated to cultivable and uncultivable clones of 
      Gammaproteobacteria (55%). To corroborate these findings, cultivation attempts 
      were performed that allowed the isolation of 87 strains assigned to the 
      proteobacterial classes. Identification was achieved by means of automated 
      ribosomal intergenic spacer analysis (ARISA) and by 16S rDNA sequencing. The 
      isolates were related to the gamma, alpha and beta subclasses of Proteobacteria 
      with respective percentages of 77, 17 and 6%. The most predominant 
      Gammaproteobacteria isolates, assigned to the Psychrobacter marincola and P. 
      submarinus clade (n=53) and to Halomonas aquamarina (n=14), showed a huge 
      intraspecific diversity with 29 distinct ARISA haplotypes. The detection by both 
      approaches of these psychrophilic and moderately halophilic species and their 
      extensive microdiversity indicated their predominance in Tyrrhenian Sea sediments 
      where they constituted the indigenous microflora.
FAU - Ettoumi, Besma
AU  - Ettoumi B
AD  - Laboratoire Microorganismes et Biomolecules Actives, Faculte des Sciences de 
      Tunis, Universite Tunis El Manar, Campus Universitaire, 2092 Tunis, Tunisia.
FAU - Bouhajja, Emna
AU  - Bouhajja E
FAU - Borin, Sara
AU  - Borin S
FAU - Daffonchio, Daniele
AU  - Daffonchio D
FAU - Boudabous, Abdellatif
AU  - Boudabous A
FAU - Cherif, Ameur
AU  - Cherif A
LA  - eng
SI  - GENBANK/GQ200468
SI  - GENBANK/GQ200469
SI  - GENBANK/GQ200470
SI  - GENBANK/GQ200471
SI  - GENBANK/GQ200472
SI  - GENBANK/GQ200473
SI  - GENBANK/GQ200474
SI  - GENBANK/GQ200475
SI  - GENBANK/GQ200476
SI  - GENBANK/GQ200477
SI  - GENBANK/GQ200478
SI  - GENBANK/GQ200479
SI  - GENBANK/GQ200480
SI  - GENBANK/GQ200481
SI  - GENBANK/GQ200482
SI  - GENBANK/GQ200483
SI  - GENBANK/GQ200484
SI  - GENBANK/GQ200485
SI  - GENBANK/GQ200486
SI  - GENBANK/GQ200487
SI  - GENBANK/GQ200488
SI  - GENBANK/GQ200489
SI  - GENBANK/GQ200490
SI  - GENBANK/GQ200491
SI  - GENBANK/GQ200492
SI  - GENBANK/GQ200493
SI  - GENBANK/GQ200494
SI  - GENBANK/GQ200495
SI  - GENBANK/GQ200496
SI  - GENBANK/GQ200497
SI  - GENBANK/GQ200498
SI  - GENBANK/GQ200499
SI  - GENBANK/GQ200500
SI  - GENBANK/GQ200501
SI  - GENBANK/GQ200502
SI  - GENBANK/GQ200503
SI  - GENBANK/GQ200504
SI  - GENBANK/GQ200505
SI  - GENBANK/GQ200506
SI  - GENBANK/GQ200507
SI  - GENBANK/GQ200508
SI  - GENBANK/GQ200509
SI  - GENBANK/GQ200510
SI  - GENBANK/GQ200511
SI  - GENBANK/GQ200512
SI  - GENBANK/GQ200513
SI  - GENBANK/GQ200514
SI  - GENBANK/GQ200515
SI  - GENBANK/GQ200516
SI  - GENBANK/GQ200517
SI  - GENBANK/GQ200518
SI  - GENBANK/GQ200519
SI  - GENBANK/GQ200520
SI  - GENBANK/GQ200521
SI  - GENBANK/GQ200522
SI  - GENBANK/GQ200523
SI  - GENBANK/GQ200524
SI  - GENBANK/GQ200525
SI  - GENBANK/GQ200526
SI  - GENBANK/GQ200527
SI  - GENBANK/GQ200528
SI  - GENBANK/GQ200529
SI  - GENBANK/GQ200530
SI  - GENBANK/GQ200531
SI  - GENBANK/GQ200532
SI  - GENBANK/GQ200533
SI  - GENBANK/GQ200534
SI  - GENBANK/GQ200535
SI  - GENBANK/GQ200536
SI  - GENBANK/GQ200537
SI  - GENBANK/GQ200538
SI  - GENBANK/GQ200539
SI  - GENBANK/GQ200540
SI  - GENBANK/GQ200541
SI  - GENBANK/GQ200542
SI  - GENBANK/GQ200543
SI  - GENBANK/GQ200544
SI  - GENBANK/GQ200545
SI  - GENBANK/GQ200546
SI  - GENBANK/GQ200547
SI  - GENBANK/GQ200548
SI  - GENBANK/GQ200549
SI  - GENBANK/GQ200550
SI  - GENBANK/GQ200551
SI  - GENBANK/GQ200552
SI  - GENBANK/GQ200553
SI  - GENBANK/GQ200554
SI  - GENBANK/GQ200555
SI  - GENBANK/GQ200556
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20100422
PL  - Germany
TA  - Syst Appl Microbiol
JT  - Systematic and applied microbiology
JID - 8306133
RN  - 0 (DNA, Bacterial)
RN  - 0 (DNA, Ribosomal)
RN  - 0 (RNA, Ribosomal, 16S)
SB  - IM
MH  - *Biodiversity
MH  - Cluster Analysis
MH  - DNA, Bacterial/chemistry/genetics
MH  - DNA, Ribosomal/chemistry/genetics
MH  - Electrophoresis, Polyacrylamide Gel
MH  - Geologic Sediments/*microbiology
MH  - Mediterranean Sea
MH  - Molecular Sequence Data
MH  - Nucleic Acid Denaturation
MH  - Phylogeny
MH  - Proteobacteria/*classification/genetics/growth & development/*isolation & 
      purification
MH  - RNA, Ribosomal, 16S/genetics
MH  - Sequence Analysis, DNA
EDAT- 2010/04/24 06:00
MHDA- 2010/08/10 06:00
CRDT- 2010/04/24 06:00
PHST- 2009/08/10 00:00 [received]
PHST- 2010/02/20 00:00 [revised]
PHST- 2010/02/22 00:00 [accepted]
PHST- 2010/04/24 06:00 [entrez]
PHST- 2010/04/24 06:00 [pubmed]
PHST- 2010/08/10 06:00 [medline]
AID - S0723-2020(10)00038-X [pii]
AID - 10.1016/j.syapm.2010.02.005 [doi]
PST - ppublish
SO  - Syst Appl Microbiol. 2010 Jun;33(4):222-31. doi: 10.1016/j.syapm.2010.02.005. 
      Epub 2010 Apr 22.