Whole genome sequencing of a novel Bacillus thuringiensis isolated from Assam soil.

Animals Bacillus thuringiensis / genetics Insecticides / pharmacology Whole Genome Sequencing Insecta / metabolism Plasmids / genetics Bacterial Proteins / genetics Endotoxins / genetics Hemolysin Proteins / genetics
B. thuringiensis strain BA04 Bacillus thuringiensis Cry genes Insecticidal proteins Whole Genome Sequencing

Journal

BMC microbiology
ISSN: 1471-2180
Titre abrégé: BMC Microbiol
Pays: England
ID NLM: 100966981

Informations de publication

Date de publication:
31 03 2023
Historique:
received: 13 09 2022
accepted: 13 03 2023
medline: 4 4 2023
entrez: 2 4 2023
pubmed: 3 4 2023
Statut: epublish

Résumé

Bacillus thuringiensis (Bt) is a gram-positive ubiquitous saprophytic bacterium that produces proteins (Crystal protein, Vegetative insecticidal protein, and Secreted insecticidal protein) toxic to insects during its growth cycle. In the present study, the whole genome of a locally isolated B. thuringiensis strain BA04 was sequenced to explore the genetic makeup and to identify the genes responsible to produce insecticidal proteins including the virulence factors. The strain was isolated from the soil sample of the Kaziranga National Park, Assam, North-Eastern part of India (Latitude: 26°34'39.11''N and Longitude: 93°10'16.04''E). The whole genome sequencing (WGS) of the BA04 strain revealed that it has a circular genome of size 6,113,005 bp with four numbers of plasmids. A total of 6,111 genes including two novel crystal protein-encoding genes (MH753362.1 and MH753363.1) were identified. The BLASTn analysis of MH753362.1 showed 84% similarities (maximum identity) with Cry1Ia (KJ710646.1) gene, whereas MH753363.1 exhibited 66% identity with Insecticidal Crystal Protein (ICP)-6 gene (KM053257.1). At the protein level, MH753362.1 and MH753363.1 shared 79% identity with Cry1Ia (AIW52613.1) and 40% identity with Insecticidal Crystal Protein (ICP)-6 (AJW76687.1) respectively. Three-dimensional structures of these two novel protein sequences revealed that MH753362.1 have 48% structural similarity with Cry8ea1 protein, whereas MH753363.1 showed only 20% structural similarity with Cry4Aa protein. Apart from these insecticidal genes, the strain was also found to contain virulence and virulence-associated factors including the antibiotic resistance genes and Clustered regularly interspaced short palindromic repeat (CRISPR) sequences. This is the first report on the whole genome sequence of Bt strain BA04 isolated from Assam, a North-Eastern state of India. The WGS of strain BA04 unveils the presence of two novel types of insecticidal crystal protein-encoding genes which can be used for the development of insect-resistant transgenic crops. Additionally, the strain could be used for the formulations of effective biopesticides. The WGS provides the fastest and cheapest platform for a better understanding of the genetic makeup of a strain and helps to explore the role of virulence genes in pathogenicity against the insect host.

Sections du résumé

BACKGROUND
Bacillus thuringiensis (Bt) is a gram-positive ubiquitous saprophytic bacterium that produces proteins (Crystal protein, Vegetative insecticidal protein, and Secreted insecticidal protein) toxic to insects during its growth cycle. In the present study, the whole genome of a locally isolated B. thuringiensis strain BA04 was sequenced to explore the genetic makeup and to identify the genes responsible to produce insecticidal proteins including the virulence factors. The strain was isolated from the soil sample of the Kaziranga National Park, Assam, North-Eastern part of India (Latitude: 26°34'39.11''N and Longitude: 93°10'16.04''E).
RESULTS
The whole genome sequencing (WGS) of the BA04 strain revealed that it has a circular genome of size 6,113,005 bp with four numbers of plasmids. A total of 6,111 genes including two novel crystal protein-encoding genes (MH753362.1 and MH753363.1) were identified. The BLASTn analysis of MH753362.1 showed 84% similarities (maximum identity) with Cry1Ia (KJ710646.1) gene, whereas MH753363.1 exhibited 66% identity with Insecticidal Crystal Protein (ICP)-6 gene (KM053257.1). At the protein level, MH753362.1 and MH753363.1 shared 79% identity with Cry1Ia (AIW52613.1) and 40% identity with Insecticidal Crystal Protein (ICP)-6 (AJW76687.1) respectively. Three-dimensional structures of these two novel protein sequences revealed that MH753362.1 have 48% structural similarity with Cry8ea1 protein, whereas MH753363.1 showed only 20% structural similarity with Cry4Aa protein. Apart from these insecticidal genes, the strain was also found to contain virulence and virulence-associated factors including the antibiotic resistance genes and Clustered regularly interspaced short palindromic repeat (CRISPR) sequences.
CONCLUSION
This is the first report on the whole genome sequence of Bt strain BA04 isolated from Assam, a North-Eastern state of India. The WGS of strain BA04 unveils the presence of two novel types of insecticidal crystal protein-encoding genes which can be used for the development of insect-resistant transgenic crops. Additionally, the strain could be used for the formulations of effective biopesticides. The WGS provides the fastest and cheapest platform for a better understanding of the genetic makeup of a strain and helps to explore the role of virulence genes in pathogenicity against the insect host.

Identifiants

DOI: 10.1186/s12866-023-02821-0 PMID: 37003972 PMC: PMC10064770
pubmed: 37003972
doi: 10.1186/s12866-023-02821-0
pii: 10.1186/s12866-023-02821-0
pmc: PMC10064770
doi:

Substances chimiques

Insecticides 0
Bacterial Proteins 0
Endotoxins 0
Hemolysin Proteins 0

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

91

Informations de copyright

© 2023. The Author(s).

Références

J Biotechnol. 2015 Nov 20;214:61-2
pubmed: 26315568
3 Biotech. 2017 Oct;7(5):303
pubmed: 28944151
Adv Protein Chem Struct Biol. 2012;86:151-91
pubmed: 22243584
J Invertebr Pathol. 2003 Feb;82(2):119-27
pubmed: 12623312
J Bacteriol. 2006 May;188(9):3382-90
pubmed: 16621833
World J Microbiol Biotechnol. 2018 Jun 27;34(7):103
pubmed: 29951787
Infect Immun. 1994 Nov;62(11):4795-803
pubmed: 7927757
Aliment Pharmacol Ther. 1996 Apr;10 Suppl 1:57-64
pubmed: 8730260
PLoS One. 2009 Dec 01;4(12):e8094
pubmed: 19956607
Acta Crystallogr D Biol Crystallogr. 2001 Aug;57(Pt 8):1101-9
pubmed: 11468393
Curr Opin Microbiol. 2012 Jun;15(3):220-31
pubmed: 22633889
Environ Microbiol. 2016 Mar;18(3):846-62
pubmed: 26995589
Bioeng Bugs. 2010 Jan-Feb;1(1):31-50
pubmed: 21327125
Appl Environ Microbiol. 2006 Jul;72(7):4796-804
pubmed: 16820473
Eur J Biochem. 1984 Mar 1;139(2):247-52
pubmed: 6421577
Protein Sci. 2014 Nov;23(11):1491-7
pubmed: 25139047
Biochim Biophys Acta. 2002 Apr 12;1561(2):171-9
pubmed: 11997117
Appl Environ Microbiol. 1987 Jun;53(6):1263-6
pubmed: 16347359
J Appl Microbiol. 1999 Aug;87(2):250
pubmed: 10475959
Appl Environ Microbiol. 2000 Jun;66(6):2627-30
pubmed: 10831447
Nucleic Acids Res. 2017 Jul 3;45(W1):W30-W35
pubmed: 28472413
Lett Appl Microbiol. 2001 Sep;33(3):241-5
pubmed: 11555212
Future Microbiol. 2010 Oct;5(10):1525-38
pubmed: 21073312
Microbiology (Reading). 1998 Aug;144 ( Pt 8):2189-2194
pubmed: 9720040
Can J Microbiol. 2004 Aug;50(8):605-13
pubmed: 15467786
FEBS Lett. 2002 Feb 27;513(2-3):242-6
pubmed: 11904158
FASEB J. 2007 Dec;21(14):4112-20
pubmed: 17646596
J Bacteriol. 2005 Sep;187(17):6094-105
pubmed: 16109951
Proc Natl Acad Sci U S A. 1991 Apr 1;88(7):2807-10
pubmed: 2011589
Bioinformatics. 2009 Jan 1;25(1):119-20
pubmed: 18990721
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W52-7
pubmed: 17537822
Science. 2007 Mar 23;315(5819):1709-12
pubmed: 17379808
Nature. 1991 Oct 31;353(6347):815-21
pubmed: 1658659
BMC Genomics. 2008 Feb 08;9:75
pubmed: 18261238
Structure. 2001 May 9;9(5):409-17
pubmed: 11377201
Appl Environ Microbiol. 2012 Aug;78(15):5270-9
pubmed: 22636013
mBio. 2017 Aug 8;8(4):
pubmed: 28790205
J Invertebr Pathol. 2012 Sep 15;111(1):1-12
pubmed: 22617276
J Mol Biol. 1995 Dec 1;254(3):447-64
pubmed: 7490762
Parasit Vectors. 2016 Dec 19;9(1):647
pubmed: 27993165
Appl Environ Microbiol. 1993 Aug;59(8):2730-3
pubmed: 16349028
Microbiol Mol Biol Rev. 1998 Sep;62(3):775-806
pubmed: 9729609
Curr Microbiol. 2009 Jun;58(6):654-9
pubmed: 19280260
PLoS Biol. 2011 Mar;9(3):e1001033
pubmed: 21445328
Braz J Microbiol. 2016 Oct - Dec;47(4):785-792
pubmed: 27522927
Biomed Res Int. 2015;2015:367243
pubmed: 25834815
FEMS Microbiol Rev. 2005 Apr;29(2):303-29
pubmed: 15808746
Sci Rep. 2015 Sep 28;5:14129
pubmed: 26411888
Curr Microbiol. 2009 Apr;58(4):389-92
pubmed: 19130127
Appl Environ Microbiol. 1993 Apr;59(4):1131-7
pubmed: 8476286
J Bacteriol. 1976 Sep;127(3):1472-81
pubmed: 182671

Auteurs

Mihir Rabha (M)

Department of Agricultural Biotechnology, Assam Agricultural University, Jorhat-13, Assam, India.
Silkworm Pathology Section, Central Sericultural Research and Training Institute, Central Silk Board, Ministry of Textile, Govt of India, Berhampore, West Bengal, 7421 01, India.

Debajit Das (D)

Department of Agricultural Biotechnology, Assam Agricultural University, Jorhat-13, Assam, India.
Department of Biotechnology-Northeast Centre for Agricultural Biotechnology (DBT-NECAB), Assam Agricultural University, Jorhat-13, Assam, India.

Trishna Konwar (T)

Department of Agricultural Biotechnology, Assam Agricultural University, Jorhat-13, Assam, India.
Department of Biotechnology-Northeast Centre for Agricultural Biotechnology (DBT-NECAB), Assam Agricultural University, Jorhat-13, Assam, India.

Sumita Acharjee (S)

Department of Agricultural Biotechnology, Assam Agricultural University, Jorhat-13, Assam, India. sumita.acharjee@aau.ac.in.
Department of Biotechnology-Northeast Centre for Agricultural Biotechnology (DBT-NECAB), Assam Agricultural University, Jorhat-13, Assam, India. sumita.acharjee@aau.ac.in.

Bidyut Kumar Sarmah (BK)

Department of Agricultural Biotechnology, Assam Agricultural University, Jorhat-13, Assam, India. bidyutsarmah@aau.ac.in.
Department of Biotechnology-Northeast Centre for Agricultural Biotechnology (DBT-NECAB), Assam Agricultural University, Jorhat-13, Assam, India. bidyutsarmah@aau.ac.in.

Articles similaires

Evaluating the efficacy of telesurgery with dual console SSI Mantra Surgical Robotic System: experiment on animal model and clinical trials.

Sudhir Prem Srivastava, Vishwajyoti Pascual Srivastava, Avinesh Singh et al.
1.00
Robotic Surgical Procedures Animals Humans Telemedicine Models, Animal

Odour generalisation and detection dog training.

Lyn Caldicott, Thomas W Pike, Helen E Zulch et al.
1.00
Animals Odorants Dogs Generalization, Psychological Smell

Atomic view of photosynthetic metabolite permeability pathways and confinement in synthetic carboxysome shells.

Daipayan Sarkar, Christopher Maffeo, Markus Sutter et al.
1.00
Photosynthesis Ribulose-Bisphosphate Carboxylase Carbon Dioxide Molecular Dynamics Simulation Cyanobacteria

FBXO22 inhibits colitis and colorectal carcinogenesis by regulating the degradation of the S2448-phosphorylated form of mTOR.

Minle Li, Xuan Chen, Pengfei Qu et al.
1.00
Animals TOR Serine-Threonine Kinases Colorectal Neoplasms Colitis Mice

Classifications MeSH

questionsmedicales.fr › Eucaryotes › Animaux › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Bactéries › Bactéries à Gram positif › Bâtonnets à Gram positif › Bâtonnets sporulés à Gram positif › Bacillaceae › Bacillus › Bacillus thuringiensis › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Actions chimiques et utilisations › Actions toxiques › Pesticides › Insecticides › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Techniques d'investigation › Techniques génétiques › Analyse de séquence › Analyse de séquence d'ADN › Séquençage du génome entier › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Eucaryotes › Animaux › Invertébrés › Arthropodes › Insectes › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Plasmides › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Protéines bactériennes › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Facteurs biologiques › Toxines biologiques › Toxines bactériennes › Endotoxines › Whole genome sequencing of a novel Bacillus...
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Protéines membranaires › Perforines › Hémolysines › Whole genome sequencing of a novel Bacillus...