title: Comparison of different protocols for the extraction of microbial DNA from reef corals.
abstract: This study aimed to test different protocols for the extraction of microbial DNA from the coral Mussismilia harttii. Four different commercial kits were tested, three of them based on methods for DNA extraction from soil (FastDNA SPIN Kit for soil, MP Bio, PowerSoil DNA Isolation Kit, MoBio, and ZR Soil Microbe DNA Kit, Zymo Research) and one kit for DNA extraction from plants (UltraClean Plant DNA Isolation Kit, MoBio). Five polyps of the same colony of M. harttii were macerated and aliquots were submitted to DNA extraction by the different kits. After extraction, the DNA was quantified and PCR-DGGE was used to study the molecular fingerprint of Bacteria and Eukarya. Among the four kits tested, the ZR Soil Microbe DNA Kit was the most efficient with respect to the amount of DNA extracted, yielding about three times more DNA than the other kits. Also, we observed a higher number and intensities of DGGE bands for both Bacteria and Eukarya with the same kit. Considering these results, we suggested that the ZR Soil Microbe DNA Kit is the best adapted for the study of the microbial communities of corals.
authors.affiliation: Laboratório de Ecologia Molecular Microbiana, Universidade Federal do Rio de Janeiro , Rio de Janeiro, RJ , Brasil.
authors.forename: H F
authors.initials: HF
authors.lastname: Santos
authors.forename: F L
authors.initials: FL
authors.lastname: Carmo
authors.forename: D C A
authors.initials: DC
authors.lastname: Leite
authors.forename: H E
authors.initials: HE
authors.lastname: Jesus
authors.forename: P De Carvalho
authors.initials: Pde C
authors.lastname: Maalouf
authors.forename: C
authors.initials: C
authors.lastname: Almeida
authors.forename: A U
authors.initials: AU
authors.lastname: Soriano
authors.forename: D
authors.initials: D
authors.lastname: Altomari
authors.forename: L
authors.initials: L
authors.lastname: Suhett
authors.forename: V
authors.initials: V
authors.lastname: Vólaro
authors.forename: E
authors.initials: E
authors.lastname: Valoni
authors.forename: M
authors.initials: M
authors.lastname: Francisco
authors.forename: J
authors.initials: J
authors.lastname: Vieira
authors.forename: R
authors.initials: R
authors.lastname: Rocha
authors.forename: B L
authors.initials: BL
authors.lastname: Sardinha
authors.forename: L B
authors.initials: LB
authors.lastname: Mendes
authors.forename: R R
authors.initials: RR
authors.lastname: João
authors.forename: B
authors.initials: B
authors.lastname: Lacava
authors.forename: R F
authors.initials: RF
authors.lastname: Jesus
authors.forename: G V
authors.initials: GV
authors.lastname: Sebastian
authors.forename: A
authors.initials: A
authors.lastname: Pessoa
authors.forename: J D
authors.initials: JD
authors.lastname: van Elsas
authors.forename: R P
authors.initials: RP
authors.lastname: Rezende
authors.forename: D O
authors.initials: DO
authors.lastname: Pires
authors.forename: G
authors.initials: G
authors.lastname: Duarte
authors.forename: C B
authors.initials: CB
authors.lastname: Castro
authors.forename: A S
authors.initials: AS
authors.lastname: Rosado
authors.forename: R S
authors.initials: RS
authors.lastname: Peixoto
keywords: DNA extraction; coral; microbial diversity
references.citation: PLoS One. 2009 Oct 06;4(10):e7319
references.pmid: 19806190
references.citation: Appl Environ Microbiol. 2010 May;76(10):3378-82
references.pmid: 20348306
references.citation: ISME J. 2010 Aug;4(8):989-1001
references.pmid: 20357834
references.citation: Nutr J. 2010 May 22;9:23
references.pmid: 20492702
references.citation: Biotechniques. 2005 Apr;38(4):579-86
references.pmid: 15884676
references.citation: ISME J. 2010 Feb;4(2):203-14
references.pmid: 19776765
references.citation: J Basic Microbiol. 2010 Aug;50(4):401-7
references.pmid: 20586066
references.citation: Nat Rev Microbiol. 2007 May;5(5):355-62
references.pmid: 17384666
references.citation: PLoS One. 2010 Aug 26;5(8):e12437
references.pmid: 20865054
references.citation: Environ Microbiol. 2007 Nov;9(11):2707-19
references.pmid: 17922755
references.citation: Science. 2003 Aug 15;301(5635):929-33
references.pmid: 12920289
references.citation: Microb Ecol. 2010 May;59(4):658-67
references.pmid: 20352207
references.citation: Trends Microbiol. 2009 Dec;17(12):554-62
references.pmid: 19822428
references.citation: Appl Environ Microbiol. 2009 May;75(10):3331-43
references.pmid: 19304829
references.citation: PLoS One. 2011 Jan 27;6(1):e16553
references.pmid: 21304582
references.citation: ISME J. 2011 Jan;5(1):51-60
references.pmid: 20668489
references.citation: PLoS One. 2011 Mar 02;6(3):e16943
references.pmid: 21399677
references.citation: Can J Microbiol. 2011 Aug;57(8):623-8
references.pmid: 21815819
references.citation: J Appl Microbiol. 2009 Apr;106(4):1378-87
references.pmid: 19187136