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Genetic diversity and phylogeny of antagonistic bacteria against Phytophthora nicotianae isolated from tobacco rhizosphere.

Jin F, Ding Y, Ding W, Reddy MS, Fernando WG, Du B - Int J Mol Sci (2011)

Bottom Line: A total of 25 16S-RFLP patterns were identified representing over 33 species from 17 different genera.Our results also found a significant amount of bacterial diversity among the antagonistic bacteria compared to other published reports.For the first time; Delftia tsuruhatensis, Stenotrophomonas maltophilia, Advenella incenata, Bacillus altitudinis, Kocuria palustris, Bacillus licheniformis, Agrobacterium tumefaciens and Myroides odoratimimus are reported to display antagonistic activity towards Phytophthora nicotianae.

View Article: PubMed Central - PubMed

Affiliation: Shandong Key Laboratory of Agricultural Microbiology, College of Life Sciences, Shandong Agricultural University, Taian, Shandong 271018, China; E-Mails: jfl315@163.com (F.J.); dingyq6885@163.com (Y.D.).

ABSTRACT
The genetic diversity of antagonistic bacteria from the tobacco rhizosphere was examined by BOXAIR-PCR, 16S-RFLP, 16S rRNA sequence homology and phylogenetic analysis methods. These studies revealed that 4.01% of the 6652 tested had some inhibitory activity against Phytophthora nicotianae. BOXAIR-PCR analysis revealed 35 distinct amplimers aligning at a 91% similarity level, reflecting a high degree of genotypic diversity among the antagonistic bacteria. A total of 25 16S-RFLP patterns were identified representing over 33 species from 17 different genera. Our results also found a significant amount of bacterial diversity among the antagonistic bacteria compared to other published reports. For the first time; Delftia tsuruhatensis, Stenotrophomonas maltophilia, Advenella incenata, Bacillus altitudinis, Kocuria palustris, Bacillus licheniformis, Agrobacterium tumefaciens and Myroides odoratimimus are reported to display antagonistic activity towards Phytophthora nicotianae. Furthermore, the majority (75%) of the isolates assayed for antagonistic activity were Gram-positives compared to only 25% that were Gram-negative bacteria.

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PCR DNA fingerprints generated with primer BOXAIR. Lanes (1–24) represent the BOXAIR groups 1, 2, 4, 5, 6, 8, 10, 11, 12, 13, 16, 18, 19, 20, 21, 23, 25, 26, 27, 29, 30, 31, 33 and 35. Lanes M are the marker 200 bp DNA ladder.
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f2-ijms-12-03055: PCR DNA fingerprints generated with primer BOXAIR. Lanes (1–24) represent the BOXAIR groups 1, 2, 4, 5, 6, 8, 10, 11, 12, 13, 16, 18, 19, 20, 21, 23, 25, 26, 27, 29, 30, 31, 33 and 35. Lanes M are the marker 200 bp DNA ladder.

Mentions: BOXAIR-PCR performed with genomic DNA yielded fingerprints with 6 to 18 polymorphic bands ranging from 200 bp to 4000 bp (Figure 2). BOXAIR-PCR resulted in complex amplified banding patterns, reflecting a high degree of genotypic diversity among the antagonistic bacteria. These banding patterns were used to generate a dendrogram (Figure 3) that divided the 267 isolates into 35 clusters or genotypic groups at a level of 91% similarity and which clustered together at 82% similarity. This includes two large groups, group 5 and 6; 21 small groups and 12 groups which consisted of only a single isolate; groups 10, 11, 14, 16, 17, 20, 26, 27, 28, 31, 32 and 35. The BOXAIR-PCR patterns of the isolates belonging to groups 5 and 6 showed a more heterogeneous pattern than the other groups and contained 52 and 43 isolates respectively with both groups consisting of isolates from all nine geographical areas sampled. Overall, on the basis of the clustering results of BOXAIR-PCR, the antagonistic bacteria from different areas were separated into 35 different groups, with little correlation to agrotype or geographical area. The BOXAIR-PCR genomic fingerprints results indicate that the antagonistic bacteria may have adapted to their environment and display, abundant hereditary capacity in the long-term evolution process leading to a significant amount of genetic diversity.


Genetic diversity and phylogeny of antagonistic bacteria against Phytophthora nicotianae isolated from tobacco rhizosphere.

Jin F, Ding Y, Ding W, Reddy MS, Fernando WG, Du B - Int J Mol Sci (2011)

PCR DNA fingerprints generated with primer BOXAIR. Lanes (1–24) represent the BOXAIR groups 1, 2, 4, 5, 6, 8, 10, 11, 12, 13, 16, 18, 19, 20, 21, 23, 25, 26, 27, 29, 30, 31, 33 and 35. Lanes M are the marker 200 bp DNA ladder.
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC3116175&req=5

f2-ijms-12-03055: PCR DNA fingerprints generated with primer BOXAIR. Lanes (1–24) represent the BOXAIR groups 1, 2, 4, 5, 6, 8, 10, 11, 12, 13, 16, 18, 19, 20, 21, 23, 25, 26, 27, 29, 30, 31, 33 and 35. Lanes M are the marker 200 bp DNA ladder.
Mentions: BOXAIR-PCR performed with genomic DNA yielded fingerprints with 6 to 18 polymorphic bands ranging from 200 bp to 4000 bp (Figure 2). BOXAIR-PCR resulted in complex amplified banding patterns, reflecting a high degree of genotypic diversity among the antagonistic bacteria. These banding patterns were used to generate a dendrogram (Figure 3) that divided the 267 isolates into 35 clusters or genotypic groups at a level of 91% similarity and which clustered together at 82% similarity. This includes two large groups, group 5 and 6; 21 small groups and 12 groups which consisted of only a single isolate; groups 10, 11, 14, 16, 17, 20, 26, 27, 28, 31, 32 and 35. The BOXAIR-PCR patterns of the isolates belonging to groups 5 and 6 showed a more heterogeneous pattern than the other groups and contained 52 and 43 isolates respectively with both groups consisting of isolates from all nine geographical areas sampled. Overall, on the basis of the clustering results of BOXAIR-PCR, the antagonistic bacteria from different areas were separated into 35 different groups, with little correlation to agrotype or geographical area. The BOXAIR-PCR genomic fingerprints results indicate that the antagonistic bacteria may have adapted to their environment and display, abundant hereditary capacity in the long-term evolution process leading to a significant amount of genetic diversity.

Bottom Line: A total of 25 16S-RFLP patterns were identified representing over 33 species from 17 different genera.Our results also found a significant amount of bacterial diversity among the antagonistic bacteria compared to other published reports.For the first time; Delftia tsuruhatensis, Stenotrophomonas maltophilia, Advenella incenata, Bacillus altitudinis, Kocuria palustris, Bacillus licheniformis, Agrobacterium tumefaciens and Myroides odoratimimus are reported to display antagonistic activity towards Phytophthora nicotianae.

View Article: PubMed Central - PubMed

Affiliation: Shandong Key Laboratory of Agricultural Microbiology, College of Life Sciences, Shandong Agricultural University, Taian, Shandong 271018, China; E-Mails: jfl315@163.com (F.J.); dingyq6885@163.com (Y.D.).

ABSTRACT
The genetic diversity of antagonistic bacteria from the tobacco rhizosphere was examined by BOXAIR-PCR, 16S-RFLP, 16S rRNA sequence homology and phylogenetic analysis methods. These studies revealed that 4.01% of the 6652 tested had some inhibitory activity against Phytophthora nicotianae. BOXAIR-PCR analysis revealed 35 distinct amplimers aligning at a 91% similarity level, reflecting a high degree of genotypic diversity among the antagonistic bacteria. A total of 25 16S-RFLP patterns were identified representing over 33 species from 17 different genera. Our results also found a significant amount of bacterial diversity among the antagonistic bacteria compared to other published reports. For the first time; Delftia tsuruhatensis, Stenotrophomonas maltophilia, Advenella incenata, Bacillus altitudinis, Kocuria palustris, Bacillus licheniformis, Agrobacterium tumefaciens and Myroides odoratimimus are reported to display antagonistic activity towards Phytophthora nicotianae. Furthermore, the majority (75%) of the isolates assayed for antagonistic activity were Gram-positives compared to only 25% that were Gram-negative bacteria.

Show MeSH