Pool deconvolution approach for high-throughput gene mining from Bacillus thuringiensis

2017 ◽  
Vol 102 (3) ◽  
pp. 1467-1482 ◽  
Author(s):  
Bhupendra S Panwar ◽  
Chet Ram ◽  
Rakesh K Narula ◽  
Sarvjeet Kaur
2020 ◽  
Author(s):  
Hualin Liu ◽  
Jinshui Zheng ◽  
Dexin Bo ◽  
Yun Yu ◽  
Weixing Ye ◽  
...  

SummaryBacillus thuringiensis (Bt) which is a spore-forming gram-positive bacterium, has been used as the most successful microbial pesticide for decades. Its toxin genes (cry) have been successfully used for the development of GM crops against pests. We have previously developed a web-based insecticidal gene mining tool BtToxin_scanner, which has been proved to be the most important method for mining cry genes from Bt genome sequences. To facilitate efficiently mining major toxin genes and novel virulence factors from large-scale Bt genomic data, we re-design this tool with a new workflow. Here we present BtToxin_Digger, a comprehensive, high-throughput, and easy-to-use Bt toxin mining tool. It runs fast and can get rich, accurate, and useful results for downstream analysis and experiment designs. Moreover, it can also be used to mine other targeting genes from large-scale genome and metagenome data with the addition of other query sequences.Availability and ImplementationThe BtToxin_Digger codes and instructions are freely available at https://github.com/BMBGenomics/BtToxin_Digger. A web server of BtToxin_Digger can be found at http://bcam.hzau.edu.cn/[email protected]; [email protected].


2012 ◽  
Vol 78 (12) ◽  
pp. 4217-4224 ◽  
Author(s):  
Stefan G. Buzoianu ◽  
Maria C. Walsh ◽  
Mary C. Rea ◽  
Orla O'Sullivan ◽  
Paul D. Cotter ◽  
...  

ABSTRACTThe objective of this study was to investigate if feeding genetically modified (GM) MON810 maize expressing theBacillus thuringiensisinsecticidal protein (Bt maize) had any effects on the porcine intestinal microbiota. Eighteen pigs were weaned at ∼28 days and, following a 6-day acclimatization period, were assigned to diets containing either GM (Bt MON810) maize or non-GM isogenic parent line maize for 31 days (n= 9/treatment). Effects on the porcine intestinal microbiota were assessed through culture-dependent and -independent approaches. Fecal, cecal, and ileal counts of total anaerobes,Enterobacteriaceae, andLactobacilluswere not significantly different between pigs fed the isogenic or Bt maize-based diets. Furthermore, high-throughput 16S rRNA gene sequencing revealed few differences in the compositions of the cecal microbiotas. The only differences were that pigs fed the Bt maize diet had higher cecal abundance ofEnterococcaceae(0.06 versus 0%;P< 0.05),Erysipelotrichaceae(1.28 versus 1.17%;P< 0.05), andBifidobacterium(0.04 versus 0%;P< 0.05) and lower abundance ofBlautia(0.23 versus 0.40%;P< 0.05) than pigs fed the isogenic maize diet. A lower enzyme-resistant starch content in the Bt maize, which is most likely a result of normal variation and not due to the genetic modification, may account for some of the differences observed within the cecal microbiotas. These results indicate that Bt maize is well tolerated by the porcine intestinal microbiota and provide additional data for safety assessment of Bt maize. Furthermore, these data can potentially be extrapolated to humans, considering the suitability of pigs as a human model.


2016 ◽  
Vol 217 ◽  
pp. 72-81 ◽  
Author(s):  
Michi Izumi Willcoxon ◽  
Jaclyn R. Dennis ◽  
Sabina I. Lau ◽  
Weiping Xie ◽  
You You ◽  
...  

2007 ◽  
Vol 177 (4S) ◽  
pp. 52-53
Author(s):  
Stefano Ongarello ◽  
Eberhard Steiner ◽  
Regina Achleitner ◽  
Isabel Feuerstein ◽  
Birgit Stenzel ◽  
...  

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