JIA 3月优先上线文章（五）
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Hafiz ABDUL HASEEB, ZHANG Jun, GUO Yu-shuang, GAO Mei-xu, GUO Wei
During the attack of a pathogen, a variety of defense-associated proteins are released by the host plant in the apoplast to impede the perceived attack. This study utilized the mass spectrometry (LC-MS/MS) and label-free quantification method to analyze the apoplastic fluid (APF) from maize stalk and identified the proteins responsive to the Fusarium verticillioides infection. We have identified 742 proteins, and among these, 119 proteins were differentially accumulated (DAPs), i.e., 35 up-regulated, 18 down-regulated, and 66 proteins were only induced by the pathogen infection. The differentially accumulated proteins were analyzed for their Gene Ontology (GO) and Kyoto Encyclopedia of Gene and Genomes (KEGG) pathway enrichment. The highly enriched Biological Process (BP) term was the L-serine biosynthesis process, whereas the most enriched Molecular Function (MF) term was the cysteine-type endopeptidase inhibitor activity. It was also found that the pathways related to the biosynthesis of amino acid, biosynthesis of secondary metabolites, protein processing in the endoplasmic reticulum, and carbohydrate metabolic pathways were significantly enriched. Moreover, 61 out of 119 differentially accumulated proteins were predicted as secretory proteins. The secretory pathways analysis showed that a greater number of proteins were secreted through the conventional secretion system compared to the unconventional secretion system. The identified secreted proteins were related to a variety of pathways in defense responses including cell redox homeostasis, cell wall modification, signal transduction, carbohydrate metabolism, binding proteins (metal ion binding, RNA binding and, heme-binding), maintenance and stabilization of other proteins, indicating a complex response from the plant to the fungal infection. Our data suggested that a number of host proteins belonging to various pathways have been modulated in the apoplastic region.
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Hafiz ABDUL HASEEB, ZHANG Jun, GUO Yu-shuang, GAO Mei-xu, GUO Wei. 2021. Proteomic analysis of pathogen-responsive proteins from maize stem apoplast triggered by Fusarium verticillioides. Journal of Integrative Agriculture, Doi:10.1016/S2095-311921)63657-2
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基于染色体代换系对大豆结瘤调控基因的特征分析
ZOU Jia-nan, ZHANG Zhan-guo, KANG Qing-lin, YU Si-yang, WANG Jie-qi, CHEN Lin, LIU Yan-ru, MA Chao, ZHU Rong-sheng, ZHU Yong-xu, DONG Xiao-hui, JIANG Hong-wei, WU Xiao-xia, WANG Nan-nan, HU Zhen-bang1, QI Zhao-ming, LIU Chun-yan, CHEN Qing-shan, XIN Da-wei, WANG Jin-hui
大豆是全世界最重要的粮食作物之一。像其他豆类一样，大豆可以与根瘤菌形成共生关系。大豆通过与根瘤菌互作共生而形成的生物固氮关系对于农业的可持续发展十分重要。III型效应因子是调控共生关系建立重要信号分子，结瘤数目的多少是反应结瘤固氮特征的一个指示性状。然而豆科宿主中响应III型效应因子的数量性状位点（QTL）和相关基因还鲜有报道。染色体代换系具有一致的遗传背景，同时含有非常少的位点含有异源遗传片段。因此染色体代换系是理想的在代换片段内挖掘目标基因的遗传材料。在本研究中，我们使用一个染色体代换系去定位影响大豆结瘤的QTL位点。我们分析了QTL区间内的单核苷酸多态性位点和候选基因。并且进一步分析了在不同导入系个体中存在表达差异的基因。4个存在单核苷酸多态性的候选基因（GmCDPK28、 GmNAC1、GmbHLH、GmERF5）被发现与结瘤性状和共生关系建立有关。进一步的研究发现转录因子GmERF5可以与III型效应因子NopAA直接互作。在本研究中确定的具有特定代换片段的导入系个体可以作为进一步研究共生关系建立的重要材料，所确定的基因可以为深入研究III型效应因子参与的网络信号机制提供重要基础。
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ZOU Jia-nan, ZHANG Zhan-guo, KANG Qing-lin, YU Si-yang, WANG Jie-qi, CHEN Lin, LIU Yan-ru, MA Chao, ZHU Rong-sheng, ZHU Yong-xu, DONG Xiao-hui, JIANG Hong-wei, WU Xiao-xia, WANG Nan-nan, HU Zhen-bang, QI Zhao-ming, LIU Chun-yan, CHEN Qing-shan, XIN Da-wei, WANG Jin-hui. 2021. Characterization of chromosome segment substitution lines reveals candidate genes associated to the nodule number in soybean. Journal of Integrative Agriculture, Doi:10.1016/S2095-3119(21)63658-4
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Nudix水解酶家族在葡萄果实发育和逆境响应中的多种生理功能分析
WANG Pei-pei, WANG Zhao-ke, GUAN Le, Muhammad Salman HAIDER, Maazullah NASIM, YUAN Yong-bing, LIU Geng-sen, LENG Xiang-peng
Nudix水解酶家族普遍存在于真核和原核生物中，能够水解多种有机焦磷酸盐。尽管Nudix水解酶家族能够清除和调节细胞内产生的有害代谢产物，应答多种非生物和生物胁迫，但葡萄中的Nudix水解酶的功能还未见报道。本研究通过生物信息学分析，在葡萄中鉴定了25个葡萄VvNUDX基因家族成员，并根据其对底物的偏好性将其分为8个亚家族。VvNUDX基因家族在进化过程中存在串联复制和片段复制两种方式。为了研究VvNUDX基因在葡萄生长发育以及胁迫应该过程中的功能，我们利用NCBI公共数据库资源分析这些基因的表达模式。在不同葡萄组织中的时空表达分析表明，VvNUDX基因可能涉及多个生长发育过程。转录组数据和定量PCR分别表明，有10个VvNUDX基因在葡萄果实发育过程中特异表达，表明VvNUDX基因可能在葡萄果实发育过程中扮演重要角色。系统发育和表达分析表明，VvNUDX1和VvNUDX3可能参与葡萄萜类化合物的生物合成。多个ADP-核糖/NADH亚组的VvNUDX基因可以应答多种非生物和生物胁迫，表明VvNUDX基因参与葡萄对非生物和生物胁迫的解毒过程，并调节疾病免疫和抗性途径。相关研究结果为有助于进一步解析VvNUDX基因在葡萄果实发育和胁迫应答网络中的生理功能。
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WANG Pei-pei, WANG Zhao-ke, GUAN Le, Muhammad Salman HAIDER, Maazullah NASIM, YUAN Yong-bing, LIU Geng-sen, LENG Xiang-peng. 2021. Versatile physiological functions of the Nudix Hydrolase family in berry development and stress response in grapevine. Journal of Integrative Agriculture, Doi:10.1016/S2095-3119(20)63490-6
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Impacts of household income on beef at-home consumption: Evidence from urban China
收入增长对在家牛肉消费的影响：来自中国城镇居民家庭的证据
ZHU Wen-bo, CHEN Yong-fu, ZHAO Jing, WU Bei-bei
随着居民收入的快速增长，中国牛肉消费量已从2000年的500万吨增长到了2019年的770万吨，但与猪肉和禽肉相比仍处于较低水平。在中国中等收入群体不断扩大的背景下，加深收入增长对牛肉消费影响的认识十分必要，这对于展望未来牛肉消费需求并为国内牛肉产业提供决策参考具有重要价值。本文基于国家统计局的32878户城镇居民家庭调查数据，运用反双曲正弦转换（IHS）的广义双栏模型估计了出城镇不同收入组家庭的牛肉需求收入弹性，并对未来牛肉消费的可能变动趋势进行了模拟分析。实证分析结果表明，在家牛肉消费需求的收入弹性从低收入组的0.169增长到高收入组0.671。不同收入增长情景的模拟分析结果表明，预计牛肉消费量在10年内将增长12.0％～38.8％，在15年内将增长18.6％～70.5％。本文的研究发现可以为决策者和其他利益相关者比如国内牛肉生产商和世界牛肉出口商提供有关未来牛肉需求变动趋势的定量依据，也说明了提高中国牛肉供给系统韧性的紧迫性。
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ZHU Wen-bo, CHEN Yong-fu, ZHAO Jing, WU Bei-bei. 2021. Impacts of household income on beef at-home consumption: Evidence from urban China. Journal of Integrative Agriculture, Doi:10.1016/S2095-3119(20)63582-1
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Farmers' risk preference and fertilizer use
农户风险偏好与肥料利用
QIAO Fang-bin, HUANG Ji-kun
本文研究了在我国棉花生产中农民的风险偏好对化肥施用的影响。与以往的研究不同，本文的理论分析表明农民的风险偏好与化肥施用之间的关系并不总是单调的。利用农户调查数据和Cobb–Douglas生产函数，本文的实证分析结果表明，当化肥施用的弹性和从获得高产预期的可能性都很高时，厌恶风险的农民施用的化肥数量多于冒险的农民。相反，当肥料施用的弹性和获得高产预期的可能性较低时，冒险的农民施用的化肥数量比厌恶风险的农民施用的化肥数量多
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QIAO Fang-bin, HUANG Ji-kun. 2021. Farmers' risk preference and fertilizer use. Journal of Integrative Agriculture, Doi: 10.1016/S2095-3119(20)63450-5