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作物学报 ›› 2024, Vol. 50 ›› Issue (11): 2699-2711.doi: 10.3724/SP.J.1006.2024.44036
曹越1,2(
), 张立媛3(), 辛旭霞1, 冯智尊1, 郭娟1, 王晓丹1, 曹晓宁2, SANTRA Dipak K4, 陈凌2, 乔治军2,*(), 王瑞云1,2,*()
CAO Yue1,2(), Zhang Li-Yuan3(), XIN Xu-Xia1, FENG Zhi-Zun1, GUO Juan1, WANG Xiao-Dan1, CAO Xiao-Ning2, SANTRA Dipak K4, CHEN Ling2, QIAO Zhi-Jun2,*(), WANG Rui-Yun1,2,*()
摘要：
糜子(Panicum miliaceum L.)种质资源丰富, 在干旱环境中具生产优势, 基于荧光SSR标记构建其DNA分子身份证可为资源的数字化管理提供理论依据和分子检测工具。本文以274份宁夏糜子核心种质为试验材料, 对山西农业大学前期开发的糜子特异性SSR标记进行多次PCR筛选和优化后获取核心引物。基于糜子参考基因组信息, 经过BLAST序列比对后将核心标记进行染色体定位。在SSR引物的5′端标注荧光(FAM/HEX), 利用毛细管电泳给出材料的基因型, 采用“0, 1”二进制编码方式记录扩增条带的有无, 使用IDAnalysis 4.0检测材料的区分程度。采用十进制(0~9)统计扩增片段大小以获得材料的字符串分子身份证。使用Popgene、Powermarker、MEGA、NTSYS进行遗传多样性、遗传聚类和主成分分析。利用二维码在线软件(
| [1] | Bhat S, Nandini C, Srinathareddy S, Jayarame G. Proso millet (Panicum miliaceum L.): a climate resilient crop for food and nutritional security: a review. Environ Conserv J, 2019, 20: 113-124. |
| [2] |
Flajsman M, Stajner N, Acko D K. Genetic diversity and agronomic performance of Slovenian landraces of proso millet (Panicum miliaceum L.). Turk J Bot, 2019, 43: 185-195.
doi: 10.3906/bot-1807-83 |
| [3] | Calamai A, Masoni A, Marini L, Dell’acqua M, Ganugi P, Boukail S, Benedettelli S, Palchetti E. Evaluation of the agronomic traits of 80 accessions of proso millet (Panicum miliaceum L.) under Mediterranean pedoclimatic conditions. Agriculture, 2020, 10: 578. |
| [4] | Ghimire B K, Yu C Y, Kim S H, Chung I M. Diversity in accessions of Panicum miliaceum L. based on agro-morphological, antioxidative, and genetic traits. Molecules, 2019, 24: 1012. |
| [5] | Gomashe S S. Millets and Sorghum: Biology and Genetic Improvement. John Wiley & Sons Ltd, 2017. pp 150-169. |
| [6] | Habiyaremye C, Matanguihan J B, D’Alpoim Guedes J, Ganjyal G M, Whiteman M R, Kidwell K K, Murphy K M. Proso millet (Panicum miliaceum L.) and its potential for cultivation in the Pacific Northwest, US: a review. Front Plant Sci, 2017, 7: 1961. |
| [7] | Hou S Y, Sun Z X, Li Y S, Wang Y J, Ling H B, Xing G F, Han Y H, Li H Y. Transcriptomic analysis, genic SSR development, and genetic diversity of proso millet (Panicum miliaceum; Poaceae). Appl Plant Sci, 2017, 5: 160-137. |
| [8] | Hunt H V, Campana M G, Lawes M C, Park Y J, Bower M A, Howe C J, Jones M K. Genetic diversity and phylogeography of broomcorn millet (Panicum miliaceum L.) across Eurasia. Mol Ecol, 2011, 20: 4756-4771. |
| [9] | Kalinová J. Nutritionally important components of proso millet (Panicum miliaceum L.). Food, 2007, 1: 91-100. |
| [10] | Wang R Y, Hunt H V, Qiao Z J, Wang L, Han Y H. Diversity and cultivation of broomcorn millet (Panicum miliaceum L.) in China: a review. Econ Bot, 2016, 70: 332-342. |
| [11] | Vetriventhan M, Azevedo V C, Upadhyaya H, Nirmalakumari A, Kane-Potaka J, Anitha S. Genetic and genomic resources, and breeding for accelerating improvement of small millets: current status and future interventions. Nucleus, 2020, 63: 217-239. |
| [12] | He Q, Wang C C, Zhang J, Liang H K, Lu Z F, Xie K, Tang S, Zhou Y H, Liu B, Zhi H, Jia G Q, Guo G G, Du H L, Diao X M. A complete reference genome assembly for foxtail millet and Setaria-DB, a comprehensive database for Setaria . Mol Plant, 2024, 17: 219-222. |
| [13] | Uddin M S, Azam M G, Bagum S A, Hakim M A. Genetic diversity analysis of proso millet (Panicum miliaceum L.) in relation to phenotypic characters. J Agric Sci Engin Innov, 2020, 1: 18-22. |
| [14] | Trivedi A, Arya L, Verma M, Verma S, Tyagi R, Hemantaranjan A. Genetic variability in proso millet (Panicum miliaceum) germplasm of Central Himalayan Region based on morpho- physiological traits and molecular markers. Acta Physiol Plant, 2015, 37: 1-16. |
| [15] | Rajput S G, Plyler-Harveson T, Santra D K. Development and characterization of SSR markers in proso millet based on switchgrass genomics. Am J Plant Sci, 2014, 3: 56-76. |
| [16] | Krishna T A, Maharajan T, David R H A, Ramakrishnan M, Ceasar S A, Duraipandiyan V. Microsatellite markers of finger millet (Eleusine coracana (L.) Gaertn) and foxtail millet (Setaria italica (L.) Beauv) provide resources for cross-genome transferability and genetic diversity analyses in other millets. Biocatal Agric Biotechnol, 2018, 16: 493-501. |
| [17] | Kalinova J, Moudry J. Content and quality of protein in proso millet (Panicum miliaceum L.) varieties. Plant Food Hum Nutr, 2006, 61: 43-47. |
| [18] |
连帅, 陆平, 乔治军, 张琦, 张茜, 刘敏轩, 王瑞云. 利用SSR分子标记研究国内外黍稷地方品种和野生资源的遗传多样性. 中国农业科学, 2016, 49: 3264-3275.
doi: 10.3864/j.issn.0578-1752.2016.17.002 |
| Lian S, Lu P, Qiao Z J, Zhang Q, Zhang Q, Liu M X, Wang R Y. Genetic diversity in broomcorn millet (Panicum miliaceum L.) from China and abroad by using SSR markers. Sci Agric Sin, 2016, 49: 3264-3275 (in Chinese with English abstract). | |
| [19] |
寇淑君, 霍阿红, 付国庆, 纪军建, 王瑶, 左振兴, 刘敏轩, 陆平. 利用荧光 SSR分析中国糜子的遗传多样性和群体遗传结构. 中国农业科学, 2019, 52: 1475-1487.
doi: 10.3864/j.issn.0578-1752.2019.09.001 |
|
Kou S J, Huo A H, Fu G Q, Ji J J, Wang Y, Zuo Z X, Liu M X, Lu P. Genetic diversity and population structure of broomcorn millet in China based on fluorescently labeled SSR. Sci Agric Sin, 2019, 52: 1475-1487 (in Chinese with English abstract).
doi: 10.3864/j.issn.0578-1752.2019.09.001 |
|
| [20] |
薛亚鹏, 丁艺冰, 王宇卓, 王晓丹, 曹晓宁, Santra D K, 陈凌, 乔治军, 王瑞云. 基于荧光SSR构建中国糜子核心种质DNA分子身份证. 中国农业科学, 2023, 56: 2249-2261.
doi: 10.3864/j.issn.0578-1752.2023.12.002 |
|
Xue Y P, Ding Y B, Wang Y Z, Wang X D, Cao X N, Santra D K, Chen L, Qiao Z J, Wang R Y. Construction of DNA molecular identity card of core germplasm of broomcorn millet in China based on fluorescence SSR. Sci Agric Sin, 2023, 56: 2249-2261 (in Chinese with English abstract).
doi: 10.3864/j.issn.0578-1752.2023.12.002 |
|
| [21] | 徐雷锋, 葛亮, 袁素霞, 任君芳, 袁迎迎, 李雅男, 刘春, 明军. 利用荧光标记SSR构建百合种质资源分子身份证. 园艺学报, 2014, 41: 2055-2064. |
| Xu L F, Ge L, Yuan S X, Ren J F, Yuan Y Y, Li Y N, Liu C, Ming J. Using the fluorescent labeled SSR markers to establish molecular identity of Lily germplasms. Acta Hortic Sin, 2014, 41: 2055-2064 (in Chinese with English abstract). | |
| [22] |
石甜甜, 何杰丽, 高志军, 陈凌, 王海岗, 乔治军, 王瑞云. 利用EST-SSR评估糜子资源遗传差异. 中国农业科学, 2019, 52: 4100-4109.
doi: 10.3864/j.issn.0578-1752.2019.22.014 |
| Shi T T, He J L, Gao Z J, Chen L, Wang H G, Qiao Z J, Wang R Y. Genetic diversity of common millet resources assessed with EST- SSR markers. Sci Agric Sin, 2019, 52: 4100-4109 (in Chinese with English abstract). | |
| [23] |
何杰丽, 石甜甜, 陈凌, 王海岗, 高志军, 杨美红, 王瑞云, 乔治军. 糜子EST-SSR分子标记的开发及种质资源遗传多样性分析. 植物学报, 2019, 54: 723-732.
doi: 10.11983/CBB19037 |
| He J L, Shi T T, Chen L, Wang H G, Gao Z J, Yang M H, Wang R Y, Qiao Z J. The genetic diversity of common millet (Panicum miliaceum) germplasm resources based on the EST-SSR markers. Chin Bull Bot, 2019, 54: 723-732 (in Chinese with English abstract). | |
| [24] | Chen J F, Liu Y, Liu M X, Guo W L, Wang Y Q, He Q, Chen W Y, Liao Y, Zhang W, Gao Y Z, Dong K J, Ren R Y, Yang T Y, Zhang L Y, Qi M Y, Li Z G, Zhao M, Wang H G, Wang J J, Qiao Z J, Li H Q, Jiang Y M, Liu G Q, Song X Q, Deng Y R, Li H, Yan F, Dong Y, Li Q Q, Li T, Yang W Y, Cu J H, Wang H R, Zhou Y F, Zhang X M, Jia G Q, Lu P, Zhi H, Tang S, Diao X M. Pangenome analysis reveals genomic variations associated with domestication traits in broomcorn millet. Nat Genet, 2023, 55: 2243-2254. |
| [25] |
王瑞云, 刘笑瑜, 王海岗, 陆平, 刘敏轩, 陈凌, 乔治军. 用高基元微卫星标记分析中国糜子遗传多样性. 中国农业科学, 2017, 50: 3848-3870.
doi: 10.3864/j.issn.0578-1752.2017.20.002 |
| Wang R Y, Liu X Y, Wang H G, Lu P, Liu M X, Chen L, Qiao Z J. Evaluation of genetic diversity of common millet (Panicum miliaceum) germplasm available in China using high motif nucleotide repeat SSR markers. Sci Agric Sin, 2017, 50: 3848-3870 (in Chinese with English abstract). | |
| [26] |
Murray M G, Thompson W F. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res, 1980, 8: 4321-4325.
doi: 10.1093/nar/8.19.4321 pmid: 7433111 |
| [27] |
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol, 2011, 28: 2731-2739.
doi: 10.1093/molbev/msr121 pmid: 21546353 |
| [28] |
Liu K J, Muse S V. PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics, 2005, 21: 2128-2129.
doi: 10.1093/bioinformatics/bti282 pmid: 15705655 |
| [29] | Yeh F C, Boyle T J B. Population genetic analysis of co-dominant and dominant markers and quantitative traits. Belg J Bot, 1997, 129-157. |
| [30] |
王舒婷, 何杰丽, 石甜甜, 陈凌, 王海岗, 王瑞云, 乔治军. 利用微卫星标记分析山西糜子的遗传多样性. 植物遗传资源学报, 2019, 20: 69-78.
doi: 10.13430/j.cnki.jpgr.20180718001 |
| Wang S T, He J L, Shi T T, Chen L, Wang H G, Wang R Y, Qiao Z J. Genetic diversity analysis of broomcorn millet (Panicum miliaceum L.) of Shanxi province using microsatellite markers. J Plant Genet Resour, 2019, 20: 69-78 (in Chinese with English abstract). | |
| [31] |
Schuelke M. An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol, 2000, 18: 233-234.
doi: 10.1038/72708 pmid: 10657137 |
| [32] | 郝晨阳, 王兰芬, 贾继增, 董玉琛, 张学勇. SSR 荧光标记和银染技术的比较分析. 作物学报, 2005, 31: 144-149. |
| Hao C Y, Wang L F, Jia J Z, Dong Y C, Zhang X Y. Comparison of fluorescence and silver-staining detection systems of microsatellite markers. Acta Agron Sin, 2005, 31: 144-149 (in Chinese with English abstract). | |
| [33] |
陈小红, 何杰丽, 石甜甜, 邵欢欢, 王海岗, 陈凌, 高志军, 王瑞云, 乔治军. 基于转录组测序开发糜子SSR标记. 中国农业科学, 2020, 53: 1940-1949.
doi: 10.3864/j.issn.0578-1752.2020.10.002 |
|
Chen X H, He J L, Shi T T, Shao H H, Wang H G, Chen L, Gao Z J, Wang R Y, Qiao Z J. Developing SSR markers of proso millet based on transcriptome sequencing. Sci Agric Sin, 2020, 53: 1940-1949 (in Chinese with English abstract).
doi: 10.3864/j.issn.0578-1752.2020.10.002 |
|
| [34] |
王宇卓, 林元香, 薛亚鹏, 段政勇, 王晓丹, 陈凌, 曹晓宁, 王瑞云, 乔治军. 山西糜子核心种质分子身份证构建. 植物学报, 2023, 58: 159-168.
doi: 10.11983/CBB22188 |
| Wang Y Z, Lin Y X, Xue Y P, Duan Z Y, Wang X D, Chen L, Cao X N, Wang R Y, Qiao Z J. Construction of molecular ID card of core germplasm of hog millet (Panicum miliaceum) in Shanxi. Bull Bot, 2023, 58: 159-168 (in Chinese with English abstract). | |
| [35] |
薛延桃, 陆平, 乔治军, 刘敏轩, 王瑞云. 基于SSR标记的黍稷种质资源遗传多样性及亲缘关系研究. 中国农业科学, 2018, 51: 2846-2859.
doi: 10.3864/j.issn.0578-1752.2018.15.002 |
| Xue Y T, Lu P, Qiao Z J, Liu M X, Wang R Y. Genetic diversity and genetic relationship of broomcorn millet (Panicum miliaceum L.) germplasm based on SSR markers. Sci Agric Sin, 2018, 51: 2846-2859 (in Chinese with English abstract). | |
| [36] |
陈小红, 林元香, 王倩, 丁敏, 王海岗, 陈凌, 高志军, 王瑞云, 乔治军. 基于高基元SSR构建黍稷种质资源的分子身份证. 作物学报, 2022, 48: 908-919.
doi: 10.3724/SP.J.1006.2022.14034 |
| Chen X H, Lin Y X, Wang Q, Ding M, Wang H G, Chen L, Wang R Y, Qiao Z J. Development of DNA molecular ID card in hog millet germplasm based on high motif SSR. Acta Agron Sin, 2022, 48: 908-919 (in Chinese with English abstract). | |
| [37] |
薛延桃, 陆平, 史梦莎, 孙昊月, 刘敏轩, 王瑞云. 新疆、甘肃黍稷资源的遗传多样性与群体遗传结构研究. 作物学报, 2019, 45: 1511-1521.
doi: 10.3724/SP.J.1006.2019.84174 |
| Xue Y T, Lu P, Shi M S, Sun H Y, Liu M X, Wang R Y. Genetic diversity and population genetic structure of broomcorn millet accessions in Xinjiang and Gansu. Acta Agron Sin, 2019, 45: 1511-1521 (in Chinese with English abstract). | |
| [38] |
王倩, 张立媛, 许月, 李海, 刘少雄, 薛亚鹏, 陆平, 王瑞云, 刘敏轩. 黍稷高基元EST-SSR标记开发及200份核心种质资源遗传多样性分析. 作物学报, 2023, 49: 2308-2318.
doi: 10.3724/SP.J.1006.2023.24201 |
|
Wang Q, Zhang L Y, Xu Y, Li H, Liu S X, Xue Y P, Lu P, Wang R Y, Liu M X. High motif EST-SSR markers development and genetic diversity evaluation for 200 core germplasms in proso millet. Acta Agron Sin, 2023, 49: 2308-2318 (in Chinese with English abstract).
doi: 10.3724/SP.J.1006.2023.24201 |
|
| [39] |
Shi J P, Ma X X, Zhang J H, Zhou Y S, Liu M X, Huang L L, Sun S L, Zhang X B, Gao X, Zhan W, Li P H, Wang L, Zhao H M. Chromosome conformation capture resolved near complete genome assembly of broomcorn millet. Nat Commun, 2019, 10: 464.
doi: 10.1038/s41467-018-07876-6 pmid: 30683940 |
| [40] |
Zou C S, Li L T, Miki D, Li D L, Tang Q M, Xiao L H, Rajput S, Deng P, Peng L, Jia W, Huang R, Zhang M L, Sun Y D, Hu J M, Fu X, Schnable P S, Chang Y X, Li F, Zhang H, Feng B L, Zhu X G, Liu R Y, Schnable J C, Zhu J K, Zhang H. The genome of broomcorn millet. Nat Commun, 2019, 10: 436.
doi: 10.1038/s41467-019-08409-5 pmid: 30683860 |
| [41] | 王瑞云. 糜子遗传多样性及进化研究进展. 北京: 中国农业出版社, 2017. |
| Wang R Y. Genetic Diversity and Evolution Advancement in Common Millet (Panicum miliaceum L.). Beijing: China Agriculture Press, 2017 (in Chinese with English abstract). |
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