scholarly journals Isolation and Identification of Endophytic Bacteria from the Roots of the Endangered Plant Ostrya rehderiana

2020 ◽  
Vol 23 (01) ◽  
pp. 82-86
Author(s):  
Taihe Xiang
Keyword(s):  
Sequence Analysis ◽  
Growth And Development ◽  
Endophytic Bacteria ◽  
Morphological Analysis ◽  
Endangered Plant ◽  
Rhizobium Strain ◽  
Isolation And Identification ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis ◽  
In The Wild

Ostrya rehderiana Chun, one of the most endangered species in China mainly because of difficult transplantation, is distributed in Western Tianmu Mountain of the Zhejiang Province in China. There are presently only five plants still remaining in the wild. Since plant endophytes affect the growth and development of the host plant either directly or indirectly, in this study, we adopted the tissue block separation method to isolate 22 endophytic bacteria strains from the roots of O. rehderiana, with 10 strains from wild O. rehderiana and 12 from O. rehderiana plantations. From morphological analysis and 16S rDNA sequence analysis, 6 known genera were identified from the 22 strains. Among the isolated strains, eight were Bacillus (the dominant endophytic bacteria in the root of O. rehderiana), six were Paenibacillus, three were Agrobacterium, three were Paraburkholderia, one was Rhizobium, and one was Pseudomonas. Both wild and plantation O. rehderiana contained Bacillus, Paenibacillus and Paraburkholderia, which presumably could promote the growth of O. rehderiana. Besides, the Rhizobium strain isolated from wild O. rehderiana might be beneficial to the growth of O. rehderiana, but the Agrobacterium strains from the plantations might impair the growth of O. rehderiana. © 2020 Friends Science Publishers

scholarly journals Erratum to: Deodorization of pig slurry and characterization of bacterial diversity using 16S rDNA sequence analysis

2014 ◽  
Vol 52 (12) ◽  
pp. 1056-1056
Author(s):  
Ok-Hwa Hwang ◽  
Sebastian Raveendar ◽  
Young-Ju Kim ◽  
Ji-Hun Kim ◽  
Tae-Hun Kim ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Bacterial Diversity ◽  
16S Rdna ◽  
Rdna Sequence ◽  
Pig Slurry ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis

Isolation and Cultivation Optimization of Chlorimuron-Ethyl Degrading Strains

2010 ◽  
Vol 113-116 ◽  
pp. 913-918
Author(s):  
De Bin Li ◽  
Lei Lu ◽  
Min Zhao
Keyword(s):  
Sequence Analysis ◽  
Bacillus Licheniformis ◽  
Contaminated Soil ◽  
Hplc Analysis ◽  
Bacterial Strains ◽  
Cultivation Conditions ◽  
Biochemical Tests ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis ◽  
Chlorimuron Ethyl

Bacterial strains with chlorimuron-ethyl degrading ability were isolated for bioremediation of contaminated soil. Six strains were obtained from chlorimuron-ethyl contaminated soil by enrichment cultivation. HPLC analysis indicated that two strains (A4 and A5) demonstrated high degradation efficiency than other strains. More than 61% of chlorimuron-ethyl was degraded by the two strains after 24 h. Based on the results of biochemical tests and 16S rDNA sequence analysis, the strain A4 and A5 were identified as Bacillus licheniformis and B. cereus, respectively. The cultivation conditions of the two strains were optimized to increase the biomass production.

scholarly journals Detection and 16S rDNA Sequence Analysis of a Bloom-forming Cyanobacterial Genus Microcystis

1998 ◽  
Vol 64 (5) ◽  
pp. 840-841 ◽  
Author(s):  
Ryuji Kondo ◽  
Manabu Komura ◽  
Shingo Hiroishi ◽  
Yoshihiko Hata
Keyword(s):  
Sequence Analysis ◽  
16S Rdna ◽  
Rdna Sequence ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis ◽  
Cyanobacterial Genus

scholarly journals Identification of Genomic Heterogeneity among Lactococcus lactis Strains by Plasmid Profiling, PFGE and 16S rDNA Sequence Analysis

2014 ◽  
Vol 63 (2) ◽  
pp. 157-166 ◽  
Author(s):  
OZLEM GUNAY-ESIYOK ◽  
NEFISE AKCELIK ◽  
MUSTAFA AKCELIK
Keyword(s):  
Sequence Analysis ◽  
16S Rdna ◽  
Lactococcus Lactis ◽  
Molecular Size ◽  
Rdna Sequence ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis ◽  
Major Cluster ◽  
Cluster A ◽  
Plasmid Profiling

Lactococcus lactis strains are used commonly as starters, which contribute to desirable flavour and texture properties known as strain-specific, in dairy industry. Genomic heterogeneity of 30 L. lactis strains originating from Turkey and characterized phenotypically were investigated in this study. Plasmid profiling, PFGE and 16S rDNA sequence analyses were performed to determine the genetic variability of strains. High degree of heterogeneity was detected among the L. lactis strains. Plasmid profiles of strains showed that compared to the plasmid free control strains, namely; L. lactis subsp. lactis IL1403 and L. lactis subsp. cremoris MG1614, all tested strains carried one to ten plasmids with molecular size ranging from 1.5 to 41.5kb. The fingerprints of strains obtained by PFGE from digestion with ApaI, SmaI and I-CeuI restriction endonucleases of chromosomal DNA's were compared with each other. All strains out of four were grouped into a large cluster A with at least 44% similarity level. The other four strains formed a minor duster B, distinctively different from major cluster A. PFGE results were confirmed by 16S rDNA sequence analysis and strains included in cluster B were identified as members of different species. These results suggested that morphologic and biochemical methods should be verified by reliable molecular approaches for the purpose of strain typing. Also, PFGE was found suitable to determine genomic differentiations among inter- and intra species.

scholarly journals 16S Ribosomal DNA Sequence Analysis of a Large Collection of Environmental and Clinical Unidentifiable Bacterial Isolates

2000 ◽  
Vol 38 (10) ◽  
pp. 3623-3630 ◽  
Author(s):  
Michel Drancourt ◽  
Claude Bollet ◽  
Antoine Carlioz ◽  
Rolland Martelin ◽  
Jean-Pierre Gayral ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
16S Rdna ◽  
Similarity Score ◽  
16S Rdna Sequencing ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis ◽  
Rdna Sequences ◽  
Rdna Sequencing ◽  
16S Rdna Sequences ◽  
Identification Of Bacteria

Some bacteria are difficult to identify with phenotypic identification schemes commonly used outside reference laboratories. 16S ribosomal DNA (rDNA)-based identification of bacteria potentially offers a useful alternative when phenotypic characterization methods fail. However, as yet, the usefulness of 16S rDNA sequence analysis in the identification of conventionally unidentifiable isolates has not been evaluated with a large collection of isolates. In this study, we evaluated the utility of 16S rDNA sequencing as a means to identify a collection of 177 such isolates obtained from environmental, veterinary, and clinical sources. For 159 isolates (89.8%) there was at least one sequence in GenBank that yielded a similarity score of ≥97%, and for 139 isolates (78.5%) there was at least one sequence in GenBank that yielded a similarity score of ≥99%. These similarity score values were used to defined identification at the genus and species levels, respectively. For isolates identified to the species level, conventional identification failed to produce accurate results because of inappropriate biochemical profile determination in 76 isolates (58.7%), Gram staining in 16 isolates (11.6%), oxidase and catalase activity determination in 5 isolates (3.6%) and growth requirement determination in 2 isolates (1.5%). Eighteen isolates (10.2%) remained unidentifiable by 16S rDNA sequence analysis but were probably prototype isolates of new species. These isolates originated mainly from environmental sources (P = 0.07). The 16S rDNA approach failed to identify Enterobacter andPantoea isolates to the species level (P = 0.04; odds ratio = 0.32 [95% confidence interval, 0.10 to 1.14]). Elsewhere, the usefulness of 16S rDNA sequencing was compromised by the presence of 16S rDNA sequences with >1% undetermined positions in the databases. Unlike phenotypic identification, which can be modified by the variability of expression of characters, 16S rDNA sequencing provides unambiguous data even for rare isolates, which are reproducible in and between laboratories. The increase in accurate new 16S rDNA sequences and the development of alternative genes for molecular identification of certain taxa should further improve the usefulness of molecular identification of bacteria.

16S rDNA sequence analysis of culturable marine biofilm forming bacteria from a ship's hull

Biofouling ◽  
2010 ◽  
Vol 26 (8) ◽  
pp. 893-899 ◽  
Author(s):  
D. Inbakandan ◽  
P. Sriyutha Murthy ◽  
R. Venkatesan ◽  
S. Ajmal Khan
Keyword(s):  
Sequence Analysis ◽  
16S Rdna ◽  
Rdna Sequence ◽  
16S Rdna Sequence ◽  
16S Rdna Sequence Analysis ◽  
Marine Biofilm
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