Rhizosphere and non-rhizosphere bacterial community composition of the wild medicinal plant Rumex patientia

World Journal of Microbiology and Biotechnology

Volumn 28, Issue 5, 2012, Pages 2257-2265

  Qi, Xiaojuan ^a,b   Wang, Ensi ^a   Xing, Ming ^a   Zhao, Wei ^a,c   Chen, Xia ^a  

^a JILIN UNIVERSITY   (China)

^b QIQIHAR MEDICAL UNIVERSITY   (China)

^c Changbai Mountain Academy of Sciences   (China)

Author keywords

Bacterial community composition; Rhizosphere soil; Small subunit rRNA

Indexed keywords

16S RDNA; ACTINOBACTERIA; BACTERIAL COMMUNITY; BACTERIAL COMMUNITY COMPOSITION; CLONING AND SEQUENCING; FIRMICUTES; GEMMATIMONADETES; JILIN , CHINA; MEDICINAL PLANTS; METAGENOMES; PHYLOGENETIC GROUPS; PLANCTOMYCETES; PROTEOBACTERIA; RHIZOSPHERE SOILS; SMALL SUBUNITS;

BACTERIA; CLONING; PLANTS (BOTANY); RNA;

SOILS;

BACTERIAL DNA; RIBOSOME DNA; RNA 16S;

ARTICLE; BACTERIUM; BIODIVERSITY; CHEMISTRY; CHINA; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; GENETICS; MEDICINAL PLANT; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANT ROOT; RHIZOSPHERE; RUMEX;

BACTERIA; BIODIVERSITY; CHINA; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; MOLECULAR SEQUENCE DATA; PHYLOGENY; PLANT ROOTS; PLANTS, MEDICINAL; RHIZOSPHERE; RNA, RIBOSOMAL, 16S; RUMEX; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

ACIDOBACTERIA; ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CHLOROFLEXI; CHLOROFLEXI (CLASS); FIRMICUTES; GEMMATIMONADETES; PLANCTOMYCETES; PROTEOBACTERIA; RUMEX; RUMEX PATIENTIA; UNCLASSIFIED BACTERIA; VERRUCOMICROBIA;

EID: 84862828934     PISSN: 09593993     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11274-012-1033-2     Document Type: Article

References (25)

1. Ahmad N, Sharma S, Khan FG, Kumar R, Johri S, Abdin MZ, Qazi GN (2008) Phylogenetic analyses of archaeal ribosomal DNA sequences from salt pan sediment of Mumbai, India. Curr Microbiol 57(2): 145-152.
2. Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59(1): 143-169.
3. Atkinson D, Watson CA (2000) The beneficial rhizosphere: a dynamic entity. Appl Soil Ecol 15(2): 99-104.
4. Buyer JS, Roberts DP, Russek-Cohen E (2002) Soil and plant effects on microbial community structure. Can J Microbiol 48(11): 955-964.
5. Chan OC, Yang XD, Fu Y, Feng ZL, Sha LQ, Casper P, Zou XM (2006) 16S rRNA gene analyses of bacterial community structures in the soils of evergreen broad-leaved forests in south-west China. FEMS Microbiol Ecol 58(2): 247-259.
6. Chiarini L, Bevivino A, Dalmastri C, Nacamulli C, Tabacchioni S (1998) Influence of plant development, cultivar and soil type on microbial colonization of maize roots. Appl Soil Ecol 8(1-3): 11-18.
7. Cibichakravarthy B, Preetha R, Sundaram S, Kumar K, Balachandar D (2012) Diazotrophic diversity in the rhizosphere of two exotic weed plants, Prosopis juliflora and Parthenium hysterophorus. World J Microbiol Biotechnol 28(2): 605-613.
8. Dalmastri C, Chiarini L, Cantale C, Bevivino A, Tabacchioni S (1999) Soil type and maize cultivar affect the genetic diversity of maize root-associated Burkholderia cepacia populations. Microbiol Ecol 38(3): 273-284.
9. Fierer N, Jackson RB (2006) The diversity and biogeography of soil bacterial communities. Proc Natl Acad Sci USA 103(3): 626-631.
10. Hiltner L (1904) Uber neuere erfahrungen und probleme auf dem gebiet der bodenbakteriologie und unter besonderer berucksichtigung der grundung und brache. Arbeiten der Deutsche Landwirtschafts-Gesellschaft 98: 59-78.
11. Jia X, Han S-j, Zhao Y-h, Zhou Y-m (2006) Comparisons of extraction and purification methods of soil microorganism DNA from rhizosphere soil. J For Res 17(1): 31-34.
12. Karthikeyan B, Jaleel CA, Lakshmanan GMA, Deiveekasundaram M (2008) Studies on rhizosphere microbial diversity of some commercially important medicinal plants. Colloid Surf B-Biointerfaces 62(1): 143-145.
13. Keswani J, Whitman WB (2001) Relationship of 16S rRNA sequence similarity to DNA hybridization in prokaryotes. Int J Syst Evol Microbiol 51: 667-678.
14. Latour X, Corberand T, Laguerre G, Allard F, Lemanceau P (1996) The composition of fluorescent pseudomonad populations associated with roots is influenced by plant and soil type. Appl Environ Microbiol 62(7): 2449-2456.
15. Lin YT, Lin CP, Chaw SM, Whitman WB, Coleman DC, Chiu CY (2010) Bacterial community of very wet and acidic subalpine forest and fire-induced grassland soils. Plant Soil 332(1-2): 417-427.
16. Lone IA, Kaur G, Athar M, Alam MS (2007) Protective effect of Rumex patientia (English Spinach) roots on ferric nitrilotriacetate (Fe-NTA) induced hepatic oxidative stress and tumor promotion response. Food Chem Toxicol 45(10): 1821-1829.
17. Marschner P, Yang CH, Lieberei R, Crowley DE (2001) Soil and plant specific effects on bacterial community composition in the rhizosphere. Soil Biol Biochem 33(11): 1437-1445.
18. Oline DK, Schmidt SK, Grant MC (2006) Biogeography and landscape-scale diversity of the dominant crenarchaeota of soil. Microb Ecol 52(3): 480-490.
19. Olsen GJ, Lane DJ, Giovannoni SJ, Pace NR, Stahl DA (1986) Microbial ecology and evolution: a ribosomal RNA approach. Annu Rev Microbiol 40: 337-365.
20. Qi JJ, Yao HY, Ma XJ, Zhou LL, Li XN (2009) Soil microbial community composition and diversity in the rhizosphere of a Chinese medicinal plant. Commun Soil Sci Plant Anal 40(9-10): 1462-1482.
21. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, van Horn DJ, Weber CF (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75(23): 7537-7541.
22. Schmalenberger A, Tebbe CC (2003) Bacterial diversity in maize rhizospheres: conclusions on the use of genetic profiles based on PCR-amplified partial small subunit rRNA genes in ecological studies. Mol Ecol 12(1): 251-261.
23. Shi JY, Yuan XF, Lin HR, Yang YQ, Li ZY (2011) Differences in soil properties and bacterial communities between the rhizosphere and bulk soil and among different production areas of the medicinal plant fritillaria thunbergii. Int J Mol Sci 12(6): 3770-3785.
24. Smalla K, Cresswell N, Hagler L (1993) Rapid DNA extraction protocol from soil for polymerase chain reaction-mediated amplification. J Appl Bacteriol 74: 78-85.
25. Sylvia DM, Chellemi DO (2001) Interactions among root-inhabiting fungi and their implications for biological control of root pathogens Advances in Agronomy, Vol 73. Academic Press Inc, San Diego, pp 1-33.