Improvement,identification, and target prediction for miRNAs in the porcine genome by using massive,public high-throughput sequencing data

Despite the broad variety of available microRNA (miRNA) research tools and methods, their application to the identification, annotation, and target prediction of miRNAs in nonmodel organisms is still limited. In this study, we collected nearly all public sRNA-seq data to improve the annotation for known miRNAs and identify novel miRNAs that have not been annotated in pigs (Sus scrofa). We newly annotated 210 mature sequences in known miRNAs and found that 43 of the known miRNA precursors were problematic due to redundant/missing annotations or incorrect sequences. We also predicted 811 novel miRNAs with high confidence, which was twice the current number of known miRNAs for pigs in miRBase. In addition, we proposed a correlation-based strategy to predict target genes for miRNAs by using a large amount of sRNA-seq and RNA-seq data. We found that the correlation-based strategy provided additional evidence of expression compared with traditional target prediction methods. The correlation-based strategy also identified the regulatory pairs that were controlled by nonbinding sites with a particular pattern, which provided abundant complementarity for studying the mechanism of miRNAs that regulate gene expression. In summary, our study improved the annotation of known miRNAs, identified a large number of novel miRNAs, and predicted target genes for all pig miRNAs by using massive public data. This large data-based strategy is also applicable for other nonmodel organisms with incomplete annotation information.     

绵羊羊角形态与遗传调控机制的研究进展

绵羊是较早驯化的家畜之一，可为人类提供肉、毛、奶等产品，因而在我国畜牧产业中占有重要的地位。由于各地自然环境的差异和社会需要的不同，经长期的选择形成了数百个外表特征和生理习性各具特色的绵羊品种。羊角作为绵羊品种的特征性表型，承担着双重功能，发达的羊角不仅有利于公羊个体提高其在种群内的地位，拥有优先交配权，还可以有效抵御天敌的攻击，使群体免受捕食伤害；然而，随着规模化养殖的推广，羊角的存在已不利于舍内饲养管理，进而对绵羊品种的培育工作提出了新要求。目前，羊角虽在实际生产和品种培育工作中受到广泛关注，但其形态多样性及遗传调控机制的研究尚显不足。本文根据我国现有绵羊品种，对角的数量和形态、发育过程、遗传调控机制等方面的研究进行了综述，不仅能为后期鉴别绵羊羊角多样性的突变位点和主效基因提供参考，也可为绵羊的新品种培育奠定相关的理论基础。     

土壤调理粉剂处理下茶园土壤重金属污染特征及潜在风险评价

本文以贵州安顺不同土壤调理粉剂处理下“瀑布毛峰”茶园土壤为供试样品,通过样品测试与理化分析,对CK处理(0 kg/hm²)、A处理(600 kg/hm²)、B处理(750 kg/hm²)和C处理(900 kg/hm²)下茶园土壤重金属含量特征及污染水平进行探讨。结果表明：不同土壤调理粉剂处理下,研究区域土壤重金属Cr、Hg、Pb、Cu、Zn、Ni、As和Cd的变异程度各异,且土壤中这8种重金属含量也各不相同,其中pH、Cr、Pb和Ni含量在C处理中最高,As、Hg和Cd含量在A处理中最高,Cu和Zn含量在B处理中最高;对各重金属元素进行相关性分析可知,Ni与Pb之间存在极显著相关性,表明两者之间的同源性极高,其余元素之间相关性特征不明显;由综合污染指数（P_综）得出A处理为轻度污染,CK处理、B处理和C处理均为中度污染,不同处理土壤中Cr均在国家Ⅱ级标准(GB15618—2008)规定范围内,样点达标率为100%,在所选定的污染评价因子中,Cu的贡献率最高,为土壤主要影响因子,其次是Cd和Ni;研究区土壤重金属单项潜在生态风险指数($E_{r}^{i}$)中Hg属于强生态风险,其余7种重金属处于轻微潜在生态风险等级;综合潜在生态风险指数(RI)平均值为196.79,总体处于中等潜在生态风险水平,Hg对RI的贡献率最大,是最主要的生态风险元素。     

基于径向基网络的含缺陷管道安全系数修正

安全系数是管道完整性评价方法的重要参数之一,传统评价方法仅考虑了管道所处地区等级对其影响,未能全面评价管道的真实安全状态。提取管道相关风险因素,比较各因素间相对重要程度并建立表征不同风险状态的分值体系,根据所得风险分值对安全系数进行修正,使得修正后的安全系数能够反映含缺陷管段实际风险状态;结合径向基网络方法的自学习特点,将各风险因素作为输入,修正后的安全系数作为输出,建立基于径向基网络的管道安全系数计算模型。由模型训练得出的修正安全系数与测试样本吻合度较好,验证了模型的准确性。结果表明:修正安全系数在考虑地区等级的基础上同时引入了其他重要风险因素的影响,为管道完整性评价中的安全系数取值提供了新的思路。     

土壤生态环境损害鉴定评估中基线确定方法讨论

随着近年来我国经济的高速发展,各地生态环境污染和破坏形势日益严重,特别是涉及土壤环境的污染和破坏事件日益增加,需要对发生土壤污染的场地进行损害鉴定评估工作。根据生态环境部《生态环境损害鉴定评估技术指南总纲和关键环节第1部分:总纲》(GB/T39791.1-2020)等技术规范,规定了4种基线确定方法:即历史数据法、对照数据法、标准基准和专项研究等方法。通过相关案例,主要分析了土壤生态环境损害鉴定评估工作中对照数据法中基线值确定方法,为后续开展相关土壤环境损害鉴定评估工作提供一定的参考。     

全混合颗粒料中添加不同类型蛋氨酸对湖羊生长性能及血清生化指标的影响

本试验旨在研究在湖羊全混合颗粒料中添加不同类型蛋氨酸(蛋氨酸钙盐与蛋氨酸羟基类似物异丙酯)对湖羊生长性能及血清生化指标、抗氧化指标和激素含量的影响。选取体重为(19.99±2.04) kg的健康湖羊72只,随机分为3组:对照组、试验Ⅰ组(在基础饲粮中添加1.5 kg/t蛋氨酸钙盐)和试验Ⅱ组(在基础饲粮中添加1.5 kg/t蛋氨酸羟基类似物异丙酯),每组6个重复,每个重复4只(公母各占1/2)。预试期7 d,正试期80 d。结果表明:1)与对照组相比,试验Ⅰ组、试验Ⅱ组总增重、平均日增重均有上升的趋势,其中试验Ⅰ组总增重提高了12.8%(P>0.05),试验Ⅱ组总增重提高了3.1%(P>0.05);料重比方面,试验Ⅰ组、试验Ⅱ组均有下降的趋势,其中试验Ⅰ组下降了12.2%(P>0.05),试验Ⅱ组下降了3.6%(P>0.05)。2)试验Ⅱ组血清甘油三酯(TG)、总胆固醇(TCH)、低密度脂蛋白胆固醇(LDL-C)、总蛋白(TP)含量显著高于对照组和试验Ⅰ组(P <0.05)。3)血清抗氧化指标及激素含量各组之间无显著差异(P>0.05)。综上所述,全混合颗粒料中添加蛋氨酸羟基类似物异丙酯及蛋氨酸钙盐具有提高肉羊生长速度、降低料重比的趋势,同时影响部分血清生化指标,但对血清抗氧化指标及激素含量无显著影响。     

绵羊心脏脂肪酸结合蛋白基因单核苷酸多态性分析

试验旨在探讨心脏脂肪酸结合蛋白（heart fatty acid-binding protein，H-FABP）基因在绵羊中的遗传多态性，并寻找可用于辅助选择的分子标记。本研究以滩羊（250只）及滩羊×湖羊杂交F1代（174只）为试验动物，利用SNaPshot分型技术对H-FABP基因（GenBank登录号：AY157617）的多态位点进行单核苷酸多态性（SNP）分析，统计基因频率和基因型频率，进行Hardy-Weinberg平衡性检测，计算期望杂合度（He）、多态信息含量（PIC）和有效等位基因数（Ne）等遗传多态指标，分析候选基因不同基因型与体重、体长、体高、胸围、胸深、胸宽和管围等生长性状的关联性。结果显示：①检测到9个多态位点：939[A/G]、980[G/A]、1018[T/C]、2878[C/T]、2956[C/T]、3017[G/A]、3341[G/C]、3394[T/A]、1056[-/G]，其中有6处转换、2处颠换、1处单碱基插入。②939[A/G]、980[G/A]、2956[C/T]、3341[G/C]、3394[T/A]和1018[T/C]的He为0.3200~0.4666，PIC为0.2688~0.3577；2878[C/T]、3017[G/A]位点的He为0.0283~0.1272，PIC为0.0279~0.1191，为低度多态；1056[-/G]位点的He在滩羊、滩羊×湖羊杂交F1代群体中分别为0.0120和0，PIC在滩羊、滩羊×湖羊杂交F1代群体中分别为0.0119和0；9个多态位点在滩羊、滩羊×湖羊杂交F1代群体中均符合Hardy-Weinberg平衡定律。③5个多态位点：939[A/G]、980[G/A]、2956[C/T]、3341[G/C]、3394[T/A]处于紧密连锁（D'>0.99），将H-FABP基因分为3个单倍型：AA、AB和BB。④在41只滩羊×湖羊杂交F1代羊中，BB单倍型在各生产性状上具有最大值，但各单倍型间差异不显著（P>0.05）。结果表明，绵羊H-FABP基因具有丰富的遗传多态性，939[A/G]、980[G/A]、2956[C/T]、3341[G/C]、3394[T/A]5个位点紧密连锁，BB单倍型可能是与绵羊生产性状相关的优势单倍型。     

A comparison of the effects of carbon dioxide and medical air for abdominal insufflation on respiratory parameters in xylazine-sedated sheep undergoing laparoscopic artificial insemination

AIMS: To determine if abdominal insufflation with medical air will improve oxygenation and ventilation parameters when compared to insufflation with CO₂ in xylazine-sedated sheep undergoing laparoscopic artificial insemination (AI).

METHODS: Forty-seven sheep underwent oestrus synchronisation and were fasted for 24 hours prior to laparoscopic AI. Each animal was randomised to receive either CO₂ or medical air for abdominal insufflation. An auricular arterial catheter was placed and utilised for serial blood sampling. Respiratory rates (RR) and arterial blood samples were collected at baseline, after xylazine (0.1?mg/kg I/V) sedation, 2 minutes after Trendelenburg positioning, 5 minutes after abdominal insufflation, and 10 minutes after being returned to a standing position. Blood samples were collected in heparinised syringes, stored on ice, and analysed for arterial pH, partial pressure of arterial O₂ (PaO₂), and CO₂ (PaCO₂). The number of ewes conceiving to AI was also determined.

RESULTS: Repeated measures ANOVA demonstrated temporal effects on RR, PaO₂, PaCO₂ and arterial pH during the laparoscopic AI procedure (p<0.001), but no difference between insufflation groups (p>0.01). No sheep experienced hypercapnia (PaCO₂>50?mmHg) or acidaemia (pH<7.35). Hypoxaemia (PaO₂<70?mmHg) was diagnosed during the procedure in 14/22 (64%) ewes in the CO₂ group compared with 8/23 (35%) ewes in the medical air group (p=0.053). Overall, 15/20 (75%) ewes in the CO₂ group conceived to AI compared with 16/22 (72.7%) in the medical air group (p=0.867).

CONCLUSIONS AND CLINICAL RELEVANCE: There were no statistical or clinical differences in RR, PaO₂, PaCO₂, pH, or conception to AI when comparing the effects of CO₂ and medical air as abdominal insufflation gases. None of the sheep experienced hypercapnia or acidaemic, yet 42% (19/45) of sheep developed clinical hypoxaemia, with a higher percentage of ewes in the CO₂ group developing hypoxaemia than in the medical air group. Based on the overall analysis, medical air could be utilised as a comparable alternative for abdominal insufflation during laparoscopic AI procedures.     

海洋芽孢杆菌N11-8产蛋白酶的发酵条件优化

本研究采用响应面法(RSM)对南极海洋芽孢杆菌(Bacillus sp.)N11-8液体发酵产蛋白酶PBN11-8的发酵条件进行快速优化。通过单因素实验初步确定南极海洋芽孢杆菌N11-8产蛋白酶的最佳碳源和氮源分别为可溶性淀粉和蛋白胨；并通过Plackett-Burman(PB)设计对影响其产酶相关因素进行评估，筛选出具有显著效应的3个因素：温度、氮源和碳源；以最陡爬坡实验逼近至上述因子最大响应区域，进而采用RSM法对其最佳水平范围进行研究，确定最优发酵条件为：可溶性淀粉3 g/L，蛋白胨13.1 g/L，酵母浸粉2.9 g/L，NaCl 5 g/L，KH2PO4 1 g/L，FeCl3·6H2O 2 mmol/L，初始pH值为7.0，温度为34.0℃，转速为200 r/min，装液量为50 ml/250 ml，接种量为4%，培养时间为60 h。最终优化后的酶活达到90.5 U/ml，比初始酶活提高了23.6%。