High-throughput sequencing approach to access the impact of nanozeolite treatment on species richness and evenness of soil metagenome

被引:19
|
作者
Khati, Priyanka [1 ]
Sharma, Anita [2 ]
Chaudhary, Parul [2 ]
Singh, Ashish Kumar [3 ]
Gangola, Saurabh [1 ]
Kumar, Rajeew [4 ]
机构
[1] ICAR VPKAS, Agr Microbiol, Crop Prod Div, Almora 263601, Uttarakhand, India
[2] GBPUA&T Pantnagar, Dept Microbiol, CBSH, Us Nagar 263145, Uttarakhand, India
[3] ICAR VPKAS, Nematol, Div Crop Protect, Almora 263601, Uttarakhand, India
[4] GBPUA&T Pantnagar, Coll Agr, Agron, Us Nagar 263145, Uttarakhand, India
关键词
Metagenomics; Nanozeolite; Illumina sequencing; Soil health; High throughput sequencing; PLANT-GROWTH; PROSPECTS;
D O I
10.1016/j.bcab.2019.101249
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Microbial diversity is a very crucial component for the soil health maintenance. The present study investigated the effects of nanozeolite on bacterial diversity of soil from the agricultural field which was under 4-year field trial with wheat crop. Nanozeolite was amended in the treated plot whereas, the control plot did not receive any treatment. The bacterial population was targeted through the hypervariable (V3) region, which is a part of 16SrDNA. The 16SrDNA region is a conserved region among the bacterial species, but to investigate the diversity among the same species the hypervariable region are the best suited sequences. More than 1 million reads per treatment revealed very high levels of diversity. The majority of the sequences were attribute to the Proteobacteria (about 23-25%), 15% and 30-35% fitted into Actinobacteria and unknown phylum, respectively. Significant higher abundances of bacterial species with NZ treatment encompassed the population associated with nutrient cycling, residue decomposition and xenobiosis. The alpha diversity index also indicated better diversity and evenness within the treated soil than untreated soil. Our findings support the importance of nanozeolite for better survival of soil microorganisms especially bacteria.
引用
收藏
页数:5
相关论文
共 50 条
  • [31] Impact of sampler selection on the characterization of the indoor microbiome via high-throughput sequencing
    Hoisington, Andrew J.
    Maestre, Juan P.
    King, Maria D.
    Siegel, Jeffrey A.
    Kinney, Kerry A.
    BUILDING AND ENVIRONMENT, 2014, 80 : 274 - 282
  • [32] Whole Genome Sequencing of Enterovirus species C Isolates by High-Throughput Sequencing: Development of Generic Primers
    Bessaud, Mael
    Sadeuh, Serge A.
    Joffret, Marie-Line
    Razafindratsimandresy, Richter
    Polston, Patsy
    Volle, Romain
    Rakoto-Andrianarivelo, Mala
    Blondel, Bruno
    Njouom, Richard
    Delpeyroux, Francis
    FRONTIERS IN MICROBIOLOGY, 2016, 7
  • [33] Integrating high-throughput sequencing and metagenome analysis to reveal the characteristic and resistance mechanism of microbial community in metal contaminated sediments
    Yan, Changchun
    Wang, Fei
    Geng, Huanhuan
    Liu, Haijun
    Pu, Shengyan
    Tian, Zhijun
    Chen, Huilun
    Zhou, Beihai
    Yuan, Rongfang
    Yao, Jun
    SCIENCE OF THE TOTAL ENVIRONMENT, 2020, 707
  • [34] MicroRNA in aquaculture fishes: a way forward with high-throughput sequencing and a computational approach
    Rasal, Kiran Dashrath
    Nandanpawar, Priyanka C.
    Swain, Pranati
    Badhe, Mohan R.
    Sundaray, Jitendra Kumar
    Jayasankar, Pallipuram
    REVIEWS IN FISH BIOLOGY AND FISHERIES, 2016, 26 (02) : 199 - 212
  • [35] LANDMark: an ensemble approach to the supervised selection of biomarkers in high-throughput sequencing data
    Josip Rudar
    Teresita M. Porter
    Michael Wright
    G. Brian Golding
    Mehrdad Hajibabaei
    BMC Bioinformatics, 23
  • [36] MicroRNA in aquaculture fishes: a way forward with high-throughput sequencing and a computational approach
    Kiran Dashrath Rasal
    Priyanka C. Nandanpawar
    Pranati Swain
    Mohan R. Badhe
    Jitendra Kumar Sundaray
    Pallipuram Jayasankar
    Reviews in Fish Biology and Fisheries, 2016, 26 : 199 - 212
  • [37] LANDMark: an ensemble approach to the supervised selection of biomarkers in high-throughput sequencing data
    Rudar, Josip
    Porter, Teresita M.
    Wright, Michael
    Golding, G. Brian
    Hajibabaei, Mehrdad
    BMC BIOINFORMATICS, 2022, 23 (01)
  • [38] A high-throughput sequencing approach identifies immunotherapeutic targets for bacterial meningitis in neonates
    Pons, Stephanie
    Frapy, Eric
    Sereme, Youssouf
    Gaultier, Charlotte
    Lebreton, Francois
    Kropec, Andrea
    Danilchanka, Olga
    Schlemmer, Laura
    Schrimpf, Cecile
    Allain, Margaux
    Angoulvant, Francois
    Lecuyer, Herve
    Bonacorsi, Stephane
    Aschard, Hugues
    Sokol, Harry
    Cywes-Bentley, Colette
    Mekalanos, John J.
    Guillard, Thomas
    Pier, Gerald B.
    Roux, Damien
    Skurnik, David
    EBIOMEDICINE, 2023, 88 : 1 - 20
  • [39] Compositional analysis: a valid approach to analyze microbiome high-throughput sequencing data
    Gloor, Gregory B.
    Reid, Gregor
    CANADIAN JOURNAL OF MICROBIOLOGY, 2016, 62 (08) : 692 - 703
  • [40] High-throughput Sequencing Analysis of the Effects of Vanadium on Bacterial Community Structure in Purple Soil
    Gan, Chun-dan
    Yang, Jin-yan
    Gou, Min
    BULLETIN OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY, 2023, 111 (05)