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Fasta file of Sanger Sequences

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DataCite Commons2022-07-13 更新2024-07-29 收录
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AG groups were determined by Sanger sequencing of the internal transcribed spacer (ITS) region using the ITS1F (CTT GGT CAT TTA GAG G AAG TAA) and ITS4B (CAG GAG ACT TGT ACA CGG TCC AG) primer pair (758 bp) (Gardes and Bruns 1993). Reactions were held at 94°C for 3 min to denature the DNA, with amplification proceeding for 35 cycles at 94 °C for 45 s, 51 °C for 60 s, and 72 °C for 90 s; a final extension of 10 min at 72 °C. Contigs were assembled using CAP3 software (Huang and Madan 1999). Taxonomy was assigned to each OTU via the NCBI BLASTn database (https://blast.ncbi.nlm.nih.gov) with criteria as 0.0 E and nucleotide match of at least 97%. <br> Gardes, M., and T. D. Bruns. 1993. ITS primers with enhanced specificity for Basidiomycetes - application to the identification of mycorrhizae and rusts. Molecular Ecology <strong>2</strong>:113-118. <br> Huang, X., and Madan, A. 1999. CAP3: A DNA sequence assembly program. Genome Res 9:868-877.

本研究中的AG类群通过针对内部转录间隔区(internal transcribed spacer, ITS)的桑格测序(Sanger sequencing)确定,所用引物对为ITS1F(序列:CTT GGT CAT TTA GAG G AAG TAA)与ITS4B(序列:CAG GAG ACT TGT ACA CGG TCC AG),扩增产物长度为758 bp(Gardes及Bruns,1993)。<br>聚合酶链式反应先于94℃预变性3分钟以完成DNA变性,随后进行35个循环的扩增反应,每个循环包含94℃变性45秒、51℃退火60秒及72℃延伸90秒;最终于72℃进行10分钟终延伸。<br>重叠群(contigs)通过CAP3软件(Huang及Madan,1999)组装得到。<br>每个操作分类单元(operational taxonomic unit, OTU)的分类学归属通过NCBI BLASTn数据库(https://blast.ncbi.nlm.nih.gov)进行分配,判定标准为E值为0.0且核苷酸序列同源性不低于97%。<br>Gardes, M., and T. D. Bruns. 1993. 针对担子菌门(Basidiomycetes)特异性增强的ITS引物——在菌根与锈菌鉴定中的应用. 分子生态学 <strong>2</strong>:113-118.<br>Huang, X., and Madan, A. 1999. CAP3:一款DNA序列组装程序. 基因组研究(Genome Res)9:868-877.

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2022-07-13
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