Distribution of lactic acid bacteria in garlic (Allium sativum) and green onion (Allium fistulosum) using SDS-PAGE whole cell protein pattern comparison and 16S rRNA gene sequence analysis

2012 ◽  
Vol 21 (5) ◽  
pp. 1457-1462 ◽  
Author(s):  
Hyun-Ji Jung ◽  
Yeun Hong ◽  
Hee-Seok Yang ◽  
Hae-Choon Chang ◽  
Hae-Yeong Kim
Keyword(s):  
Allium Sativum ◽  
Gene Sequence ◽  
Protein Pattern ◽  
Cell Protein ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Sds Page ◽  
Pattern Comparison ◽  
Whole Cell Protein

scholarly journals Whole cell protein and partial 16S rRNA gene sequence analysis suggest the existence of a second Rothia species

1998 ◽  
Vol 4 (5) ◽  
pp. 255-263 ◽  
Author(s):  
Göran Kronvall ◽  
Margareta Lannér-Sjöberg ◽  
Lars Victor von Stedingk ◽  
Hanna-Stina Hanson ◽  
Bertil Pettersson ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Cell Protein ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Whole Cell ◽  
Gene Sequence Analysis ◽  
Whole Cell Protein

scholarly journals Lactobacillus namurensis sp. nov., isolated from a traditional Belgian sourdough

2007 ◽  
Vol 57 (2) ◽  
pp. 223-227 ◽  
Author(s):  
Ilse Scheirlinck ◽  
Roel Van der Meulen ◽  
Ann Van Schoor ◽  
Ilse Cleenwerck ◽  
Geert Huys ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Gene Sequence ◽  
Taxonomic Status ◽  
Species Group ◽  
Cell Protein ◽  
Rrna Gene ◽  
Phylogenetic Affiliation ◽  
Gene Sequence Analysis ◽  
Sds Page ◽  
Whole Genomes

A biodiversity study on lactic acid bacteria (LAB) occurring in traditional Belgian sourdoughs resulted in the isolation of two Lactobacillus isolates, LMG 23583T and LMG 23584, that could not be assigned to any recognized LAB species. The two isolates were initially investigated by means of phenylalanyl-tRNA synthase (pheS) gene sequence analysis and were found to occupy a separate position relative to recognized Lactobacillus species present in the pheS database. Subsequently, their phylogenetic affiliation was determined by 16S rRNA gene sequence analysis, indicating that the two isolates belong to the Lactobacillus buchneri species group with Lactobacillus zymae, Lactobacillus acidifarinae and Lactobacillus spicheri as closest relatives. Whole-cell protein analysis (SDS-PAGE) and amplified fragment length polymorphism fingerprinting of whole genomes confirmed their separate taxonomic status. DNA–DNA hybridization experiments, DNA G+C content, growth characteristics and biochemical features demonstrated that the two isolates represent a novel Lactobacillus species, for which the name Lactobacillus namurensis sp. nov. is proposed. The type strain is LMG 23583T (=CCUG 52843T).

scholarly journals Lactobacillus acidifarinae sp. nov. and Lactobacillus zymae sp. nov., from wheat sourdoughs

2005 ◽  
Vol 55 (2) ◽  
pp. 615-620 ◽  
Author(s):  
M. Vancanneyt ◽  
P. Neysens ◽  
M. De Wachter ◽  
K. Engelbeen ◽  
C. Snauwaert ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Fragment Length Polymorphism ◽  
Sequence Similarity ◽  
Lactobacillus Brevis ◽  
Cell Protein ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Protein Fingerprinting ◽  
Gene Sequence Analysis ◽  
Type Strains

Three heterofermentative lactic acid bacteria, obtained from Greek and Belgian artisanal wheat sourdoughs, were preliminarily identified as Lactobacillus brevis-like after screening using whole-cell protein fingerprinting and 16S rRNA gene sequence analysis. The three sourdough isolates showed nearly identical sequences (>99·7 % sequence similarity), and highest similarities of 98·2 and 97·6 % were obtained to the species Lactobacillus spicheri and Lactobacillus brevis, respectively. Growth characteristics, biochemical features, amplified fragment length polymorphism fingerprinting, DNA–DNA hybridizations and DNA G+C contents demonstrated that the isolates represent two novel Lactobacillus species. The names Lactobacillus acidifarinae sp. nov. and Lactobacillus zymae sp. nov. are proposed and the type strains are LMG 22200T (=R-19065T=CCM 7240T) and LMG 22198T (=R-18615T=CCM 7241T), respectively.

scholarly journals Lactobacillus crustorum sp. nov., isolated from two traditional Belgian wheat sourdoughs

2007 ◽  
Vol 57 (7) ◽  
pp. 1461-1467 ◽  
Author(s):  
Ilse Scheirlinck ◽  
Roel Van der Meulen ◽  
Ann Van Schoor ◽  
Geert Huys ◽  
Peter Vandamme ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Dna Hybridization ◽  
Gene Sequence ◽  
Fragment Length Polymorphism ◽  
Cell Protein ◽  
Rrna Gene ◽  
Aflp Fingerprinting ◽  
Phylogenetic Affiliation ◽  
Gene Sequence Analysis ◽  
Sds Page

A polyphasic taxonomic study of the lactic acid bacteria (LAB) population in three traditional Belgian sourdoughs, sampled between 2002 and 2004, revealed a group of isolates that could not be assigned to any recognized LAB species. Initially, sourdough isolates were screened by means of (GTG)5-PCR fingerprinting. Four isolates displaying unique (GTG)5-PCR patterns were further investigated by means of phenylalanyl-tRNA synthase (pheS) gene sequence analysis and represented a bifurcated branch that could not be allocated to any LAB species present in the in-house pheS database. Their phylogenetic affiliation was determined using 16S rRNA gene sequence analysis and showed that the four sourdough isolates belong to the Lactobacillus plantarum group with Lactobacillus mindensis, Lactobacillus farciminis and Lactobacillus nantensis as closest relatives. Further genotypic and phenotypic studies, including whole-cell protein analysis (SDS-PAGE), amplified fragment length polymorphism (AFLP) fingerprinting, DNA–DNA hybridization, DNA G+C content analysis, growth characteristics and biochemical features, demonstrated that the new sourdough isolates represent a novel Lactobacillus species for which the name Lactobacillus crustorum sp. nov. is proposed. The type strain of the new species is LMG 23699T (=CCUG 53174T).

scholarly journals Burkholderia silvatlantica sp. nov., a diazotrophic bacterium associated with sugar cane and maize

2006 ◽  
Vol 56 (8) ◽  
pp. 1931-1937 ◽  
Author(s):  
L. Perin ◽  
L. Martínez-Aguilar ◽  
G. Paredes-Valdez ◽  
J. I. Baldani ◽  
P. Estrada-de los Santos ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sugar Cane ◽  
Gene Sequence ◽  
Cell Protein ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Whole Cell ◽  
Whole Cell Protein ◽  
Sequence Similarities

In a previous study, nitrogen-fixing isolates were recovered from the rhizosphere of maize and from surface-sterilized leaves of sugar cane cultivated in Rio de Janeiro, Brazil. On the basis of 16S rRNA gene sequence similarities, these isolates were identified as belonging to the genus Burkholderia, and whole-cell-protein profiles demonstrated that they are closely related to each other. In the present study, novel isolates were recovered from the roots of different sugar-cane varieties cultivated in diverse geographical regions of Brazil. Twenty-one nitrogen-fixing isolates were analysed using polyphasic taxonomy criteria, including DNA–DNA relatedness, 16S rRNA gene sequence similarities, fatty acid profiles, whole-cell-protein patterns and multilocus enzyme electrophoresis profiles, as well as morphological, physiological and biochemical characterization. The analysis confirmed that these isolates belong to a novel species within the genus Burkholderia, for which the name Burkholderia silvatlantica sp. nov. is proposed. The type strain, SRMrh-20T (=LMG 23149T=ATCC BAA-1244T), was isolated from the rhizosphere of maize var. Avantis A2345 cultivated in Seropédica, Rio de Janeiro.

scholarly journals Microbial Diversity of Septic Tank Effluent and a Soil Biomat

2009 ◽  
Vol 75 (10) ◽  
pp. 3348-3351 ◽  
Author(s):  
Jill Tomaras ◽  
Jason W. Sahl ◽  
Robert L. Siegrist ◽  
John R. Spear
Keyword(s):  
Sequence Analysis ◽  
Microbial Diversity ◽  
Gene Sequence ◽  
Septic Tank ◽  
Rrna Gene ◽  
Control Soil ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Site Water ◽  
Septic Tank Effluent

ABSTRACT Microbial diversity of septic tank effluent (STE) and the biomat that is formed as a result of STE infiltration on soil were characterized by 16S rRNA gene sequence analysis. Results indicate that microbial communities are different within control soil, STE, and the biomat and that microbes found in STE are not found in the biomat. The development of a stable soil biomat appears to provide the best on-site water treatment or protection for subsequent groundwater interactions of STE.

scholarly journals Actinocorallia cavernae sp. nov., isolated from a natural cave in Jeju, Korea

2006 ◽  
Vol 56 (5) ◽  
pp. 1085-1088 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Dilution Method ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Polar Lipid Profile ◽  
Phylogenetic Cluster ◽  
Gene Sequence Analysis ◽  
Actinomycete Strain

A novel actinomycete, strain N3-7T, was isolated from a natural cave in Jeju, Republic of Korea, using a dilution method and was subjected to characterization using polyphasic taxonomy. A 16S rRNA gene sequence analysis revealed that the organism belonged to the phylogenetic cluster of the genus Actinocorallia and was most closely related to Actinocorallia glomerata and Actinocorallia longicatena (97.6 and 97.5 % similarity, respectively). The main chemotaxonomic properties of strain N3-7T, such as the principal amino acid of the peptidoglycan, the predominant menaquinone and the polar lipid profile, supported classification in the genus Actinocorallia. The organism was readily differentiated from Actinocorallia species with validly published names on the basis of a broad range of phenotypic properties. Thus the isolate represents a novel species of the genus Actinocorallia, for which the name Actinocorallia cavernae sp. nov. is proposed. The type strain is strain N3-7T (=JCM 13278T=NRRL B-24429T).

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