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1. JIA-2022-0700 面向多粒度柑橘品质分级的视觉学习图卷积方法
GUAN Zhi-bin, ZHANG Yan-qi, CHAI Xiu-juan, CHAI Xin, ZHANG Ning, ZHANG Jian-hua, SUN Tan
Journal of Integrative Agriculture    2023, 22 (1): 279-291.   DOI: 10.1016/j.jia.2022.09.019
摘要212)      PDF    收藏

柑橘品质取决于其外观优劣和横径大小。外观指果皮的光滑度和清洁度;横径指柑橘的横向直径大小。柑橘的外观和横径均属于视觉属性特征,能够被视觉感知技术自动识别。然而,目前柑橘品质分级任务中有两个问题亟待解决:1缺少可用于柑橘品质分级的图像数据集;2)从多角度有效地学习柑橘的细粒度和差异化视觉语义具有较高挑战性。对于多粒度品质分级任务,我们收集了源于2087个柑橘的12522张图像此外,我们提出了一种用于多粒度柑橘品质分级的视觉学习图卷积方法,包括骨干网络和图卷积网络。骨干网络中的目标检测、数据增强和特征提取能够剔除柑橘图像中无关的视觉信息图卷积网络被用于学习柑橘特征映射的拓扑语义。最后,评估结果显示横径大小、外观和

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2. Genome-wide identification and expression analysis of StPP2C gene family in response to multiple stresses in potato (Solanum tuberosum L.)
WANG Yi-fan, LIAO Yu-qiu, WANG Ya-peng, YANG Jiang-wei, ZHANG Ning, SI Huai-jun
Journal of Integrative Agriculture    2020, 19 (6): 1609-1624.   DOI: 10.1016/S2095-3119(20)63181-1
摘要153)      PDF    收藏
The plant protein phosphatase 2Cs (PP2Cs) play an essential role in response to stress and abscisic acid (ABA) signaling pathway.  However, to date, no systemic characterization of the PP2Cs has yet been conducted in potato (Solanum tuberosum L.).  In the study, a comprehensive research was performed on genome-wide identification and expression analysis of StPP2C genes in potato.  A total of 78 potato StPP2C genes were identified based on specific structure of PP2C domain, which were distributed across 11 out of 12 potato chromosomes and divided into 12 (A–L) phylogenetic branches.  The result from gene duplication analysis showed that 14 StPP2Cs were involved in gene tandem duplication and 8 genes formed fragment duplication events, which indicated that both tandem and fragment duplication contributed to the expansion of the gene family in evolution.  Exon–intron structural analysis showed that they had a wide range of exon numbers.  Analysis of protein conservative motif demonstrated that StPP2Cs contained more similar motif structures in the same phylogenetic branches.  The cis-elements in StPP2C gene promoter regions were mainly responded to light, phytohormone and abiotic stress.  Most of them exhibited tissue-specific expression patterns, and some members could differentially express under abiotic stress.  The evidence suggested that StPP2C genes may contribute to different functions in several physiological stress and environmental stress conditions.  This study could provide new insights to further investigate StPP2C functional characteristics responding to various stresses in potato.
 
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3. The cellular interactome for glycoprotein 5 of the Chinese highly pathogenic porcine reproductive and respiratory syndrome virus
DU Ji-ge, GE Xin-na, DONG Hong, ZHANG Ning, ZHOU Lei, GUO Xin, YANG Han-chun
Journal of Integrative Agriculture    2016, 15 (8): 1833-1845.   DOI: 10.1016/S2095-3119(15)61186-8
摘要1262)      PDF    收藏
   The glycoprotein 5 (GP5) of porcine reproductive and respiratory syndrome virus (PRRSV) is a multi-functional protein that plays important roles in virus assembly, entry and viral anti-host responses. In the present study, we investigated the cellular binding partners of GP5 by using lentivirus transduction coupled with immunoprecipitation and mass spectrometry. There were about 40 cellular proteins identified with high Confidence Icons by MS/MS. Ingenuity Pathway Analysis (IPA) indicated that these proteins could be assigned to different functional classes and networks. Furthermore, we validated some of the interactions by co-immunoprecipitation (Co-IP) and confocal microscopy, including those with mitofilin, a mitochondrial inner membrane protein that might be involved in PRRSV or GP5-induced apoptosis, and calnexin, a protein chaperone that might facilitate the folding and maturation of GP5. The interactome data contribute to understand the role and molecular mechanisms of GP5 in PRRSV pathogenesis.
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4. SlSOM inhibits seed germination by regulating the expression of ABA/GA metabolic genes and SlABI5 in Solanum lycopersicum
SUN Xiao-chun, GAO Yong-feng, ZHANG Ning, LI Hui-rong, YANG Shu-zhang, LIU Yong-sheng
Journal of Integrative Agriculture    2015, 14 (2): 326-336.   DOI: 10.1016/S2095-3119(14)60859-5
摘要1815)      PDF    收藏
SOM encodes a nucleus-localized CCCH-type zinc finger protein and negatively regulates seed germination in Arabidopsis thaliana. We have previously demonstrated that ectopic expression of SlABI3, an important transcription factor in abscisic acid (ABA) signaling pathway, resulted in alteration of SlSOM expression patterns in both leaf and seed of tomato. In this study, we aimed to elucidate the function of tomato SlSOM in regarding to seed germination and seedling development. Here, we constructed SlSOM over-expression vector pBI121-SOM driven by CaMV 35S promoter, and the recombinant plasmid was incorporated into wild-type tomato by the method of Agrobacterium tumefaciens-mediated transformation. The result showed that over-expression of SlSOM conferred enhanced responses to exogenous ABA application during seed germination and seedling development. In addition, ectopic expression of SlSOM resulted in the alteration of expression level of ABA/GA (gibberellins) metabolic genes, such as SlABA1, SlCYP707A1, SlGA3ox2, and SlGA2ox4, in both leaf and seed. The ABA anabolic gene SlABA1 and the GA catabolic gene SlGA2ox4 were up-regulated while the ABA catabolic gene SlCYP707A1 and the GA anabolic gene SlGA3ox2 were down-regulated. Compared to wild type, the expression level of SlABI5 was increased by about 40–50% in transgenic seeds while adding exogenous ABA treatment. These results support the notion that SlSOM inhibits seed germination by regulating ABA/GA metabolic genes and SlABI5 expression in Solanum lycopersicum.
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5. Effects of RNAi Silencing of SSIII Gene on Phosphorus Content and Characteristics of Starch in Potato Tubers
DU Hong-hui, YANG Tao, MA Cong-yu, FENG Dan, ZHANG Ning, SI Huai-jun, WANG Di
Journal of Integrative Agriculture    2012, 12 (12): 1985-1992.   DOI: 10.1016/S1671-2927(00)8735
摘要1247)      PDF    收藏
The sense and antisense fragments of the soluble starch synthase (SSIII) gene and the intron fragment of somatic embryogenesis receptor-like kinase (SERK1) gene were cloned from potato using PCR techniques. The RNAi plant expression vectors pBI-SSIII-RNAi and pBIC-SSIII-RNAi were constructed which containing fusion fragment of “sense fragment-intron-antisense fragment” driven by the constitutive expression promoter CaMV 35S and the tuber-specific expression promoter CIPP, respectively. The putative transgenic plants of potato cultivars Kexin-1 and Kexin-4 were obtained using Agrobacterium-mediated transformation method. PCR assay showed that the interference fragment of SSIII gene was integrated into potato genome. The RT-PCR analysis showed that the expression of SSIII gene was repressed apparently on the transcription level. Starch granules of the transgenic potato plants were different in morphology and became cracked in starch granule centre compared with the non-transgenic control plants. The amylose content of starch was increased by 2.68-29.05%, amylopectin to amylose ratio of starch had declined significantly, and the phosphorus content of the starch of the transgenic plants was reduced 9.94-58.36% compared with control plants. The results could provide certain foundation for improvement of potato starch quality.
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