Genomic Sequencing and Phylogenetic Analysis of BiotGm

Genomic DNA from BiotGm was prepared using the procedure reported^{66 (link)}. The BiotGm genome was sequenced using the Pacific Biosciences RS II (Pacific Biosciences, Menlo Park, CA, USA) sequencing platform. The sequencing depth was ~200-fold coverages. De novo assembly of PacBio reads was carried out using RS_HGAP_Assembly.3 protocol included in SMRT portal. Genome annotation was performed by the NCBI Prokaryotic Genome Automatic Annotation Pipeline. Composition vector tree (CVTree) phylogenetic analysis was performed using a free, web-based tool-the Bacillus Typing Bioinformatics Database (https://btbidb.com)^{67 (link)}. The genome data of other B. thuringiensis strains were selected in the database to generate the phylogenetic tree.

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Han B., Zhang L., Geng L., Jia H., Wang J., Ke L., Li A., Gao J., Wu T., Lu Y., Liu F., Song H., Wei X., Ma S., Zhan H., Wu Y., Liu Y., Wang Q., Diao Q., Zhang J, & Dai P. (2023). Greater wax moth control in apiaries can be improved by combining Bacillus thuringiensis and entrapments. Nature Communications, 14, 7073.

Publication 2023

RS II

Bacillus Genome Hgap Prokaryotic Smrt Strains Tree Vector

Corresponding Organization :

Other organizations : Institute of Apiculture Research, Chinese Academy of Agricultural Sciences, Institute of Plant Protection, Shanxi Agricultural University, Guizhou Academy of Agricultural Sciences, Enshi Tujia and Miao Autonomous Prefecture Academy of Agricultural Sciences

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Variable analysis

independent variables

Genomic DNA preparation procedure reported in reference 66
Pacific Biosciences RS II sequencing platform
RS_HGAP_Assembly.3 protocol for de novo assembly of PacBio reads
NCBI Prokaryotic Genome Automatic Annotation Pipeline for genome annotation
Composition vector tree (CVTree) phylogenetic analysis using the Bacillus Typing Bioinformatics Database

dependent variables

Sequencing depth (~200-fold coverages)
Genome assembly and annotation
Phylogenetic analysis results

control variables

Not explicitly mentioned

controls

No positive or negative controls were explicitly mentioned in the provided information.

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