Classification and Identification of Bacillus LM Based on Whole Genome and Study on Its Antibacterial Principle

doi:10.13560/j.cnki.biotech.bull.1985.2020-1303

Abstract

Abstract:

Bacillus LM,which inhibits Aspergillus niger,was analyzed with genomics and UPLC-Q-TOF-MS. Combined with morphological characteristics,16S rRNA sequence and gyrA gene cluster analysis,the strain was primarily identified as Bacillus amyloliquefaciens. The analysis of whole genome showed that the genome size of the strain was 4 000 885 bp and GC content was 46.24%. The analysis of antiSMASH demonstrated that there were 11 secondary metabolite gene clusters and most of them encoded antibacterial substances. UPLC-Q-TOF-MS analysis revealed that the molecular weights of 10 chemical compounds were consistent with those by 3 predicted gene clusters via antiSMASH,which were lipopeptide antibiotics-like surfactin,iturin and fengycin. It could be speculated that the B. amyloliquefaciens activity of suppressing A. niger was associated with those 3 substances.

Key words: Bacillus amyloliquefaciens, antibacterial activity, genome, secondary metabolism gene cluster, UPLC-Q-TOF-MS

CAI Guo-lei, LU Xiao-kai, LOU Shui-zhu, YANG Hai-ying, DU Gang. Classification and Identification of Bacillus LM Based on Whole Genome and Study on Its Antibacterial Principle[J]. Biotechnology Bulletin, 2021, 37(8): 176-185.

Figures/Tables 11

References 23

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基因组组装 Genome assembly	大小Size
总支架数 Total number of scaffold /个	97
总重叠群数 Total number of contig /个	97
最大长度 The maximum length /bp	365 023
最小长度 The Minimum length /bp	300
支架大小 The scaffold size /bp	4 000 885
重叠群大小The contig size /bp	4 000 885
N50支架大小 Scaffold N50 size /bp	130 035
N50重叠群大小 Contig N50 size /bp	130 035
N90 支架大小Scaffold N90 size /bp	41 219
N90 重叠群大小Contig N90 size /bp	41 219
GC含量 GC content /%	46.24

基因组组装 Genome assembly	大小Size
总支架数 Total number of scaffold /个	97
总重叠群数 Total number of contig /个	97
最大长度 The maximum length /bp	365 023
最小长度 The Minimum length /bp	300
支架大小 The scaffold size /bp	4 000 885
重叠群大小The contig size /bp	4 000 885
N50支架大小 Scaffold N50 size /bp	130 035
N50重叠群大小 Contig N50 size /bp	130 035
N90 支架大小Scaffold N90 size /bp	41 219
N90 重叠群大小Contig N90 size /bp	41 219
GC含量 GC content /%	46.24

菌株 Strain	基因组大小 Genome size /bp	GC含量 GC content /%
Bacillus amyloliquefaciens WF02	4.03	46.50
Bacillus amyloliquefaciens ZJU1	4.06	46.40
Bacillus amyloliquefaciens YP6	4.01	45.90
Bacillus amyloliquefaciens ALB79	3.98	46.40
Bacillus amyloliquefaciens Y14	3.96	46.40
Bacillus amyloliquefaciens WS-8	3.93	46.50
Bacillus amyloliquefaciens MT45	3.90	46.10
Bacillus amyloliquefaciens KC41	4.12	46.00
Bacillus amyloliquefaciens T-5	4.04	46.50
Bacillus amyloliquefaciens LM	4.00	46.24

菌株 Strain	基因组大小 Genome size /bp	GC含量 GC content /%
Bacillus amyloliquefaciens WF02	4.03	46.50
Bacillus amyloliquefaciens ZJU1	4.06	46.40
Bacillus amyloliquefaciens YP6	4.01	45.90
Bacillus amyloliquefaciens ALB79	3.98	46.40
Bacillus amyloliquefaciens Y14	3.96	46.40
Bacillus amyloliquefaciens WS-8	3.93	46.50
Bacillus amyloliquefaciens MT45	3.90	46.10
Bacillus amyloliquefaciens KC41	4.12	46.00
Bacillus amyloliquefaciens T-5	4.04	46.50
Bacillus amyloliquefaciens LM	4.00	46.24

Cluster	Function category
3	Bacilysin biosynthetic（细菌溶素生物合成）
4	Bacillibactin biosynthetic（杆菌素生物合成）
20	Macrolactin H biosynthetic（大环内酰亚胺H生物合成）
9/23/37	Difficidin biosynthetic（大环内酯类抗生素生物合成）
1	Bacillaene biosynthetic（杆菌烯生物合成）
1	Bacillomycin D biosynthetic（杆菌霉素D生物合成）
2	Plantazolicin biosynthetic（车前唑啉生物合成）
28	Plipastatin biosynthetic（巴斯他汀生物合成）
10/33/41	Surfactin biosynthetic（表面活性素生物合成）
30/38/42	Fengycin biosynthetic（芬荠素生物合成）
16	Butirosin A biosynthetic（丁酸普菌素A生物合成）