Four different Sox genes in Amur sturgeon Acipenser schrenckii and five Sox genes in chum salmon Oncorhynchus keta were identified for the first time in this paper, and there was no sexual difference for these genes i...Four different Sox genes in Amur sturgeon Acipenser schrenckii and five Sox genes in chum salmon Oncorhynchus keta were identified for the first time in this paper, and there was no sexual difference for these genes in these two fishes. For Amur sturgeon, the encoded amino acid sequences exhibited 98%, 98%, 98%, 86% of sequence homology with those reported for human SOX HMG box, respectively, and for chum salmon, the encoded amino acid sequences exhibited 93%,98%,98%,98%,96% of sequence homology with those reported for human SOX HMG box, respectively. Two different forms of Sox9 gene in chum salmon were found, and Sox9 contained a 303 bp and 258 bp introns in the HMG box for chum salmon respectively while 572 bp for Amur sturgeon. No clear similarity was observed between the introns in the Sox9 HMG box of different fishes, but the introns occur in the HMG box region between the second and third bases of the codon for arginine at residue 42 in HMG box for the three fishes, and obey the rule of “GT AG”. and the encoded amino acid sequences in the three Sox9 genes HMG box are very conservative in the two fishes (100% identification). Identification of these genes is a potential step in understanding development regulations including sex determination in Amur sturgeon.展开更多
Cystatin, a superfamily of cysteine proteinase inhibitors related to cathepsins and other cysteine proteinases, is widely distributed in animal tissues and body fluids. Although considerable attention has been given t...Cystatin, a superfamily of cysteine proteinase inhibitors related to cathepsins and other cysteine proteinases, is widely distributed in animal tissues and body fluids. Although considerable attention has been given to mammalian and avian cystatins, little data exist on cystatins from other vertebrates. In order to isolate fish cystatin cDNA, total RNAs were isolated from liver tissues of the Chinese sturgeon (Acipenser sinensis) and Amur sturgeon (Acipenser schrenckii), respectively. The cDNAs encoding the mature peptides of cystatin and the 3′ untranslated region of the two species of sturgeon were amplified by reverse transcription polymerase chain reaction (RT PCR) using total RNA as a template. The amplified cDNA fragments were inserted into pGEM T Easy vector and sequenced and the amino acid sequences deduced. Nucleotide sequence analysis showed that both cDNAs encode 112 amino acid residues of the mature cystatin peptide. The similarity of the two sturgeon nucleotide sequence coding regions and the deduced amino acid sequences were 99 4% and 100%, respectively. Analysis of the amino acid sequences indicate that the cloned cystatins were the homolog of the mammalian cystatin C. The amino acid residues of the functional regions are well conserved among different species, but there is considerable divergence in large portions of the coding region of two sturgeon cystatins in a variety of species.展开更多
【目的】阐明养殖密度对西伯利亚杂交鲟(西伯利亚鲟Acipenser baerii♀×施氏鲟Acipenser schrenckii♂)生长性能的影响机制,获得最适宜的养殖密度,为该品种健康养殖提供理论数据。【方法】选取规格一致、健康无病的初始体质量为(7....【目的】阐明养殖密度对西伯利亚杂交鲟(西伯利亚鲟Acipenser baerii♀×施氏鲟Acipenser schrenckii♂)生长性能的影响机制,获得最适宜的养殖密度,为该品种健康养殖提供理论数据。【方法】选取规格一致、健康无病的初始体质量为(7.89±1.45)g的西伯利亚杂交鲟幼鱼,设置低密度组(LD,0.465 kg/m2)、中密度组(MD,0.694 kg/m2)和高密度组(HD,0.930 kg/m2)3个不同的养殖密度进行为期90 d的生产试验,每个密度设置3个重复,每个重复组取1肌肉组织共9个样品进行RNA-seq测序和生物信息学分析。【结果】共得到60.70 Gb Clean Data,各样品的Clean Data均达到6.30 Gb,Q20和Q30碱基百分比在97.45%和93.42%以上;将小体鲟(Acipenser ruthenus)的基因组作为参考基因组进行比对,比对效率在72.64%~74.38%,发掘15549个新基因;将新基因进行注释发现,12636个新基因得到注释,2913个新基因未得到注释;进一步对3个密度组两两比较进行差异表达基因分析,共得到611个非冗余差异表达基因(DEGs),其中LD vs HD和LD vs MD比较组有33个共同DEGs,LD vs HD和MD vs HD比较组有40个共同DEGs,LD vs MD和MD vs HD比较组有31个共同DEGs,只有1个DEG是3个比较组共有;GO功能富集分析发现,这些DEGs主要富集在GTPase活性的增加、肌球蛋白复合物、肌动蛋白结合、ATP结合以及锌离子结合等二级节点中。在此基础上,通过人工筛选与生长应激相关的二级节点,获得了27条与生长应激相关的差异基因,其中包括调控生长轴GH/IGF的生长激素受体(GHR)和胰岛素样生长因子1和2(IGF-1、IGF-2)。选取9条表达差异倍数大的基因进行qRT-PCR验证发现,其mRNA表达趋势均与转录组分析中的表达趋势一致。【结论】不同养殖密度条件下,西伯利亚杂交鲟幼鱼生长、应激等相关基因的表达模式发生显著变化。展开更多
文摘Four different Sox genes in Amur sturgeon Acipenser schrenckii and five Sox genes in chum salmon Oncorhynchus keta were identified for the first time in this paper, and there was no sexual difference for these genes in these two fishes. For Amur sturgeon, the encoded amino acid sequences exhibited 98%, 98%, 98%, 86% of sequence homology with those reported for human SOX HMG box, respectively, and for chum salmon, the encoded amino acid sequences exhibited 93%,98%,98%,98%,96% of sequence homology with those reported for human SOX HMG box, respectively. Two different forms of Sox9 gene in chum salmon were found, and Sox9 contained a 303 bp and 258 bp introns in the HMG box for chum salmon respectively while 572 bp for Amur sturgeon. No clear similarity was observed between the introns in the Sox9 HMG box of different fishes, but the introns occur in the HMG box region between the second and third bases of the codon for arginine at residue 42 in HMG box for the three fishes, and obey the rule of “GT AG”. and the encoded amino acid sequences in the three Sox9 genes HMG box are very conservative in the two fishes (100% identification). Identification of these genes is a potential step in understanding development regulations including sex determination in Amur sturgeon.
文摘Cystatin, a superfamily of cysteine proteinase inhibitors related to cathepsins and other cysteine proteinases, is widely distributed in animal tissues and body fluids. Although considerable attention has been given to mammalian and avian cystatins, little data exist on cystatins from other vertebrates. In order to isolate fish cystatin cDNA, total RNAs were isolated from liver tissues of the Chinese sturgeon (Acipenser sinensis) and Amur sturgeon (Acipenser schrenckii), respectively. The cDNAs encoding the mature peptides of cystatin and the 3′ untranslated region of the two species of sturgeon were amplified by reverse transcription polymerase chain reaction (RT PCR) using total RNA as a template. The amplified cDNA fragments were inserted into pGEM T Easy vector and sequenced and the amino acid sequences deduced. Nucleotide sequence analysis showed that both cDNAs encode 112 amino acid residues of the mature cystatin peptide. The similarity of the two sturgeon nucleotide sequence coding regions and the deduced amino acid sequences were 99 4% and 100%, respectively. Analysis of the amino acid sequences indicate that the cloned cystatins were the homolog of the mammalian cystatin C. The amino acid residues of the functional regions are well conserved among different species, but there is considerable divergence in large portions of the coding region of two sturgeon cystatins in a variety of species.
文摘【目的】阐明养殖密度对西伯利亚杂交鲟(西伯利亚鲟Acipenser baerii♀×施氏鲟Acipenser schrenckii♂)生长性能的影响机制,获得最适宜的养殖密度,为该品种健康养殖提供理论数据。【方法】选取规格一致、健康无病的初始体质量为(7.89±1.45)g的西伯利亚杂交鲟幼鱼,设置低密度组(LD,0.465 kg/m2)、中密度组(MD,0.694 kg/m2)和高密度组(HD,0.930 kg/m2)3个不同的养殖密度进行为期90 d的生产试验,每个密度设置3个重复,每个重复组取1肌肉组织共9个样品进行RNA-seq测序和生物信息学分析。【结果】共得到60.70 Gb Clean Data,各样品的Clean Data均达到6.30 Gb,Q20和Q30碱基百分比在97.45%和93.42%以上;将小体鲟(Acipenser ruthenus)的基因组作为参考基因组进行比对,比对效率在72.64%~74.38%,发掘15549个新基因;将新基因进行注释发现,12636个新基因得到注释,2913个新基因未得到注释;进一步对3个密度组两两比较进行差异表达基因分析,共得到611个非冗余差异表达基因(DEGs),其中LD vs HD和LD vs MD比较组有33个共同DEGs,LD vs HD和MD vs HD比较组有40个共同DEGs,LD vs MD和MD vs HD比较组有31个共同DEGs,只有1个DEG是3个比较组共有;GO功能富集分析发现,这些DEGs主要富集在GTPase活性的增加、肌球蛋白复合物、肌动蛋白结合、ATP结合以及锌离子结合等二级节点中。在此基础上,通过人工筛选与生长应激相关的二级节点,获得了27条与生长应激相关的差异基因,其中包括调控生长轴GH/IGF的生长激素受体(GHR)和胰岛素样生长因子1和2(IGF-1、IGF-2)。选取9条表达差异倍数大的基因进行qRT-PCR验证发现,其mRNA表达趋势均与转录组分析中的表达趋势一致。【结论】不同养殖密度条件下,西伯利亚杂交鲟幼鱼生长、应激等相关基因的表达模式发生显著变化。
