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A transferred regulator that contributes to Xanthomonas oryzae pv. oryzicola oxidative stress adaptation and virulence by regulating the expression of cytochrome bd oxidase genes
WANG Pei-hong, WANG Sai, NIE Wen-han, WU Yan, Iftikhar AHMAD, Ayizekeranmu YIMING, HUANG Jin, CHEN Gong-you, ZHU Bo
2022, 21 (6): 1673-1682.   DOI: 10.1016/S2095-3119(21)63801-7
Abstract392)      PDF in ScienceDirect      
Horizontal gene transfer (HGT) has been well documented as a driving force in the evolution of bacteria.  It has been shown that a horizontally acquired gene, xoc_2868, involved in the global response against oxidative stress and pathogenicity of Xanthomonas oryzae pv. oryzicola strain BLS256.  However, as a transcriptional factor (TF), the regulatory mechanism of XOC_2868 has not yet been revealed.  Here, evolutionary analysis suggested XOC_2868 might be co-transferred with its physically proximate downstream genes from a Burkholderiaceae ancestor.  Interestingly, RNA-seq data of wild-type (BLS256) and Δxoc_2868 strains under oxidative stress showed that XOC_2868 did not regulate the expression of its adjacent genes, but remarkably influenced the expression of several genes involved in the extracellular polysaccharide (EPS) production and xanthan biosynthesis.  Chromatin immunoprecipitation-sequence (ChIP-seq) combined with transcriptome analysis revealed that XOC_2868 directly regulates a cydAB operon, encoding two subunits of cytochrome bd oxidase and involved in redox balance.  Consistent with Δxoc_2868 strain, cydA- and cydAB-knockout mutants also showed a higher sensitivity to H2O2 along with a reduced bacterial virulence compared with the wild-type strain.  Overall, our findings raise the possibility of regulatory circuit evolution shaped by HGT and driven by selection and reveal a novel regulatory pathway that regulates the expression of cytochrome bd oxidase and thus contributes to the virulence of BLS256.  
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Comprehensive evaluation of 20 pomegranate (Punica granatum L.) cultivars in China 
CHEN Yan-hui, GAO Hui-fang, WANG Sa, LIU Xian-yan, HU Qing-xia, JIAN Zai-hai, WAN Ran, SONG Jin-hui, SHI Jiang-li
2022, 21 (2): 434-445.   DOI: 10.1016/S2095-3119(20)63389-5
Abstract208)      PDF in ScienceDirect      
Recent investigations on pomegranate products have significantly increased and successfully drawn consumers’ attention to nutritional and medicinal values, promoting the pomegranate industry’s development worldwide.  However, little information on pomegranates grown in China is available.  Morphological and chemical characterizations of fruits and arils from 20 pomegranate cultivars in six regions of China were investigated.  Combined with overall scores by principal component analysis, ‘Yushiliu No. 1’, ‘Taishanhong No. 2’, ‘Tunisia’ and ‘Mollar’ were promising cultivars, and Chinese researchers bred the first two.  It was surprising that ‘Mollar’ had bigger fruit size and more aril moisture grown in China than in Spain.  Cultivars with higher anthocyanin content in arils were ‘Turkey’, ‘Moyu’ and ‘Red Angel’, which might be used as the source of natural red food colourants.  While red husk ‘Hongruyi’ and ‘Hongshuangxi’ with higher vitamin C, aril moisture and lower titratable acid in arils, might also be promising cultivars for further various utilization.  Furthermore, the comparison of ‘Tunisia’ fruits from four regions revealed that cultivation locations had more influence on fruit traits than genotypes.  Maturity index classification was established for Chinese pomegranate cultivars.  Therefore, the results would provide a valuable guide for agricultural cultivation, industrial utilization, and breeding. 
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Does poverty-alleviation-based industry development improve farmers’ livelihood capital?
LIU Ming-yue, FENG Xiao-long, WANG San-gui, ZHONG Yu
2021, 20 (4): 915-926.   DOI: 10.1016/S2095-3119(20)63449-9
Abstract206)      PDF in ScienceDirect      
Targeted poverty alleviation is a unique approach adopted in China to help achieve the vision of a moderately prosperous society in all aspects and the “Chinese Dream”.  Industrial development as a means of poverty alleviation is an integral part of the “Five-pronged Poverty Alleviation Measures” Project of targeted poverty alleviation, and a critical foundation for other poverty alleviation measures.  In this study, a comprehensive evaluation method was used to measure farmers’ livelihood based on the framework of sustainable livelihood.  Specifically, the effects of industrial development on farmers’ livelihood capital were estimated by employing the propensity score matching combined with the difference-in-differences (PSM-DID) approach.  Findings suggest that industrial development had a significantly positive effect on the livelihood capital of farmers.  Industrial development can significantly enhance farmers’ human, social and financial capital, while it cannot significantly affect the natural and physical capital.  Industrial development had heterogeneous effects on farmers’ livelihood capital, more efficiently impacting on the non-poor than the poor.  The effects on farmers’ livelihood capital varied across regions, with Guizhou experiencing a larger effect than Sichuan.  However, the effect was insignificant for farmers in Gansu.  To improve farmers’ livelihood capital, it is necessary to take measures to strengthen their human capital, promote the innovation of financial products, and make good use of their social capital; it is also essential to strengthen the support of industrial development to the poor. 
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Horizontal gene transfer of a syp homolog contributes to the virulence of Burkholderia glumae
WANG Sai, WANG Pei-hong, NIE Wen-han, CUI Zhou-qi, LI Hong-yu, WU Yan, Ayizekeranmu YIMING, FU Luo-yi, Iftikhar AHMAD, CHEN Gong-you, ZHU Bo
2021, 20 (12): 3222-3229.   DOI: 10.1016/S2095-3119(20)63553-5
Abstract176)      PDF in ScienceDirect      
Horizontal gene transfer (HGT) has been proved a major driving force in prokaryotic evolution.  However, the molecular functions of these transferred genes in pathogenic bacteria especially plant pathogenic bacteria are still not fully investigated.  In this study, the whole-genome in silico analysis was performed and found a syringopeptin synthetase (syp) homolog in Burkholderia glumae, which can cause bacterial panicle blight in rice, was predicted to be horizontally transferred from Pseudomonas ancestor with solid confidence by phylogenetic analysis.  The comprehensive molecular experiments were performed to study the potential role of this gene in B. glumae.  Inoculation of rice panicles with the syp mutant resulted in 60% lower disease index compared with the wild type (WT) parent strain, suggesting the requirement of syp for the full virulence of B. glumae.  Chromatography analysis of exudates from B. glumae showed suppression of synthesis of metabolites analogous to syringopeptin in the mutants.  All these data raise the possibility of HGT phenomenon in shaping the virulence and adaptation of B. glumae over evolutionary time.
 
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Emerging frontier technologies for food safety analysis and risk assessment
DONG Yi-yang, LIU Jia-hui, WANG Sai, CHEN Qi-long, GUO Tian-yang, ZHANG Li-ya, JIN Yong, SU Hai-jia, TAN Tian-wei
2015, 14 (11): 2231-2242.   DOI: 10.1016/S2095-3119(15)61123-6
Abstract1620)      PDF in ScienceDirect      
Access to security and safe food is a basic human necessity and essential for a sustainable world. To perform hi-end food safety analysis and risk assessment with state of the art technologies is of utmost importance thereof. With applications as exemplified by microfluidic immunoassay, aptasensor, direct analysis in real time, high resolution mass spectrometry, benchmark dose and chemical specific adjustment factor, this review presents frontier food safety analysis and risk assessment technologies, from which both food quality and public health will benefit undoubtedly in a foreseeable future.
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