K. Nasir, Muhammad Fairuz Mohd Yusof, M. S. F. A. Razak, Siti Norsaidah Ibrahim, Mira Farzana Mohamad Moktar, Khadijah Awang, M. Ali
{"title":"通过对斑点芽孢杆菌转录组分析发现简单序列重复标记","authors":"K. Nasir, Muhammad Fairuz Mohd Yusof, M. S. F. A. Razak, Siti Norsaidah Ibrahim, Mira Farzana Mohamad Moktar, Khadijah Awang, M. Ali","doi":"10.17265/2159-5828/2020.02.001","DOIUrl":null,"url":null,"abstract":"Baccaurea motleyana (rambai) is underutilized fruits that are native to Malaysia, Indonesia and Thailand. In this study, a total of 54,779 unigenes identified from rambai transcriptome were used for simple sequence repeat (SSR) analysis by MIcroSAtellite (MISA). A total of 20,420 SSRs were found to be distributed within 37.27% of the total number of unigenes. Mononucleotide repeats represented the main type, accounting for 64.04%, followed by trinucleotide repeats (20.28%) and dinucleotide repeats (19.94%). Gene annotation to seven databases has a success ratio of 68.53% (National Center for Biotechnology Information (NCBI) protein sequences), 53.68% (NCBI nucleotide sequences), 27.43% (Kyoto Encyclopedia of Genes and Genome Ortholog), 56.0% (SwissProt), 52.44% (Protein family), 53.99% (Gene Ontology) and 26.44% (Kluster of Orthologous Group). Further rambai SSRs were randomly selected and validated to B. motleyana (rambai), B. macrocarpa (tampoi), B. polyneura (jentik-jentik), B. ramiflora (pupor) and B. scortechinii (setambun).","PeriodicalId":68173,"journal":{"name":"食品科学与工程:英文版(美国)","volume":" ","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2020-06-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Discovery of Simple Sequence Repeat Markers through Transcriptome Analysis of Baccaurea motleyana\",\"authors\":\"K. Nasir, Muhammad Fairuz Mohd Yusof, M. S. F. A. Razak, Siti Norsaidah Ibrahim, Mira Farzana Mohamad Moktar, Khadijah Awang, M. Ali\",\"doi\":\"10.17265/2159-5828/2020.02.001\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Baccaurea motleyana (rambai) is underutilized fruits that are native to Malaysia, Indonesia and Thailand. In this study, a total of 54,779 unigenes identified from rambai transcriptome were used for simple sequence repeat (SSR) analysis by MIcroSAtellite (MISA). A total of 20,420 SSRs were found to be distributed within 37.27% of the total number of unigenes. Mononucleotide repeats represented the main type, accounting for 64.04%, followed by trinucleotide repeats (20.28%) and dinucleotide repeats (19.94%). Gene annotation to seven databases has a success ratio of 68.53% (National Center for Biotechnology Information (NCBI) protein sequences), 53.68% (NCBI nucleotide sequences), 27.43% (Kyoto Encyclopedia of Genes and Genome Ortholog), 56.0% (SwissProt), 52.44% (Protein family), 53.99% (Gene Ontology) and 26.44% (Kluster of Orthologous Group). Further rambai SSRs were randomly selected and validated to B. motleyana (rambai), B. macrocarpa (tampoi), B. polyneura (jentik-jentik), B. ramiflora (pupor) and B. scortechinii (setambun).\",\"PeriodicalId\":68173,\"journal\":{\"name\":\"食品科学与工程:英文版(美国)\",\"volume\":\" \",\"pages\":\"\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2020-06-28\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"食品科学与工程:英文版(美国)\",\"FirstCategoryId\":\"1087\",\"ListUrlMain\":\"https://doi.org/10.17265/2159-5828/2020.02.001\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"食品科学与工程:英文版(美国)","FirstCategoryId":"1087","ListUrlMain":"https://doi.org/10.17265/2159-5828/2020.02.001","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
Discovery of Simple Sequence Repeat Markers through Transcriptome Analysis of Baccaurea motleyana
Baccaurea motleyana (rambai) is underutilized fruits that are native to Malaysia, Indonesia and Thailand. In this study, a total of 54,779 unigenes identified from rambai transcriptome were used for simple sequence repeat (SSR) analysis by MIcroSAtellite (MISA). A total of 20,420 SSRs were found to be distributed within 37.27% of the total number of unigenes. Mononucleotide repeats represented the main type, accounting for 64.04%, followed by trinucleotide repeats (20.28%) and dinucleotide repeats (19.94%). Gene annotation to seven databases has a success ratio of 68.53% (National Center for Biotechnology Information (NCBI) protein sequences), 53.68% (NCBI nucleotide sequences), 27.43% (Kyoto Encyclopedia of Genes and Genome Ortholog), 56.0% (SwissProt), 52.44% (Protein family), 53.99% (Gene Ontology) and 26.44% (Kluster of Orthologous Group). Further rambai SSRs were randomly selected and validated to B. motleyana (rambai), B. macrocarpa (tampoi), B. polyneura (jentik-jentik), B. ramiflora (pupor) and B. scortechinii (setambun).
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