[1] 尹明华, 谭鑫, 郑亚娇, 等. 高海拔生境下‘怀玉山’高山马铃薯和怀玉山本土农家薯块茎的转录组分析[J]. 核农学报, 2019, 33(7): 1330 − 1339.

YIN Minghua, TAN Xin, ZHENG Yajiao, et al. The transcriptome analysis of alpine potato tuber and local farm potato tuber in Huaiyushan under high altitude habitats [J]. Journal of Nuclear Agricultural Sciences, 2019, 33(7): 1330 − 1339.
[2] 尹明华, 刘燕, 郁雪婷, 等. ‘怀玉山’高山马铃薯茎尖再生苗6 种病毒的 DAS-ELISA 检测与分析[J]. 浙江农业学报, 2017, 29(10): 1699 − 1705.

YIN Minghua, LIU Yan, YU Xueting, et al. DAS-ELISA detection and analysis of six kinds of viruses in plantlets regenerated from Huaiyushan high mountain potato shoot-tips [J]. Acta Agriculturae Zhejiangensis, 2017, 29(10): 1699 − 1705.
[3] 尹明华, 王钦, 张红蕾, 等. 高海拔生境下‘怀玉山’高山马铃薯和本土农家薯的全基因组重测序分析[J]. 基因组学与应用生物学, 2020, 39(3): 1198 − 1207.

YIN Minghua, WANG Qin, ZHANG Honglei, et al. Whole genome re-sequencing analysis of alpine potato and local farm potato in Huaiyu Mountain under high altitude habitats [J]. Genomics and Applied Biology, 2020, 39(3): 1198 − 1207.
[4] 洪森荣, 张铭心, 叶思雨, 等. 高山马铃薯种质资源遗传多样性的同工酶分析[J]. 浙江农业学报, 2018, 30(9): 1445 − 1453.

HONG Senrong, ZHANG Mingxin, YE Siyu, et al. Genetic diversity analysis of alpine potato germplasm resources by isozyme [J]. Acta Agriculturae Zhejiangensis, 2018, 30(9): 1445 − 1453.
[5] MEHMETOGLU E, KAYMAZ Y, ATES D, et al. The complete chloroplast genome sequence of Cicer echinospermum, genome organization and comparison with related species [J/OL]. Scientia Horticulturae, 2022, 296: 110912[2023-01-20]. doi: 10.1016/j.scienta.2022.110912.
[6] SHENG Jiajing, YAN Mi, WANG Jia, et al. The complete chloroplast genome sequences of five Miscanthus species, and comparative analyses with other grass plastomes [J/OL]. Industrial Crops and Products, 2021, 162: 113248[2023-01-20]. doi: 10.1016/j.indcrop.2021.113248.
[7] TANG Danfeng, WEI Fan, KASHIF M H, et al. Analysis of chloroplast differences in leaves of rice isonuclear alloplasmic lines [J]. Protoplasma, 2018, 255(3): 863 − 871.
[8] LI Guoling, PAN Zonglian, GAO Shichen, et al. Analysis of synonymous codon usage of chloroplast genome in Porphyra umbilicalis [J]. Genes &Genomics, 2019, 41(10): 1173 − 1181.
[9] DURET L. Evolution of synonymous codon usage in metazoans [J]. Current Opinion in Genetics &Development, 2002, 12(6): 640 − 649.
[10] HERSHBERG R, PETROV D A. Selection on codon bias [J]. Annual Review of Genetics, 2008, 42: 287 − 299.
[11] WANG Hongjun, MENG Tao, WEI Wenqiang. Analysis of synonymous codon usage bias in helicase gene from Autographa californicamultiple ucleopolyhedrovirus [J]. Genes &Genomics, 2018, 40(7): 767 − 780.
[12] LONG Shiyu, YAO Huipeng, WU Qi, et al. Analysis of compositional bias and codon usage pattern of the coding sequence in Banna virus genome [J]. Virus Research, 2018, 258: 68 − 72.
[13] 关惜今, 朱智国, 郑昊吉, 等. 马铃薯与其野生近缘种叶绿体基因组差异分析[J]. 云南师范大学学报(自然科学版), 2021, 41(4): 33 − 40.

GUAN Xijin, ZHU Zhiguo, ZHENG Haoji, et al. Comparative analysis of plastid chloroplast genomes between potato and its wild relatives [J]. Journal of Yunnan Normal University (Natural Sciences Edition), 2021, 41(4): 33 − 40.
[14] ZHAO Chunbo, CHEN Shanshan, SUN Kai, et al. Sequencing and characterization the complete chloroplast genome of the potato, Solanum tuberosum L. [J]. Mitochondrial DNA Part B, 2019, 4(1): 953 − 954.
[15] CHUNG H J, JUNG J D, PARK H W, et al. The complete chloroplast genome sequences of Solanum tuberosum and comparative analysis with Solanaceae species identified the presence of a 241-bp deletion in cultivated potato chloroplast DNA sequence [J]. Plant Cell Reports, 2006, 25: 1369 − 1379.
[16] CHEN Shanshan, ZHAO Yanfei, ZHANG Jingying, et al. Characterization of the complete chloroplast genome of the Solanum tuberosum L. cv. Shepody (Solanaceae) [J]. Mitochondrial DNA Part B, 2021, 6(8): 2342 − 2344.
[17] PARK T H. Complete chloroplast genome sequence of the wild diploid potato relative, Solanum acaule [J]. Mitochondrial DNA Part B, 2021, 6(3): 1189 − 1191.
[18] PARK T H. Complete chloroplast genome sequence of the wild diploid potato relative, Solanum brevicaule [J]. Mitochondrial DNA Part B, 2019, 4(2): 4159 − 4160.
[19] KHAN A R, PARK C E, PARK G S, et al. The whole chloroplast genome sequence of black nightshade plant (Solanum nigrum) [J]. Mitochondrial DNA Part A, 2015, 28(2): 169 − 170.
[20] 尹明华, 卢咏琪, 罗怿文, 等. 怀玉山高山马铃薯脱落酸和环境胁迫诱导蛋白基因的克隆和序列分析[J]. 西南农业学报, 2021, 34(6): 1181 − 1187.

YIN Minghua, LU Yongqi, LUO Yiwen, et al. Cloning and sequence analysis of abscisic acid and environmental stress inducible protein gene in alpine potato in Huaiyushan [J]. Southwest China Journal of Agricultural Sciences, 2021, 34(6): 1181 − 1187.
[21] 尹明华, 叶思雨, 宁本松, 等. 高山马铃薯脱毒苗DNA甲基化的MSAP分析[J]. 核农学报, 2019, 33(6): 1079 − 1087.

YING Minghua, YE Siyu, NING Bensong, et al. MSAP analysis of genomic DNA methylation in virus-free plantlets of alpine potato [J]. Journal of Nuclear Agricultural Sciences, 2019, 33(6): 1079 − 1087.
[22] FENG Shangguo, ZHENG Kaixin, JIAO Kaili, et al. Complete chloroplast genomes of four Physalis species (Solanaceae): lights into genome structure, comparative analysis, and phylogenetic relationships [J/OL]. BMC Plant Biology, 2020, 20(1): 242[2023-01-20]. doi: 10.1186/s12870-020-02429-w.
[23] ZHANG Tongwu, FANG Yongjun, WANG Xumin, et al. The complete chloroplast and mitochondrial genome sequences of Boeahygrometrica: insights into the evolution of plant organellar genomes [J/OL]. PLoS One, 2012, 7(1): e30531[2023-01-20]. doi: 10.1371/journal.pone.0030531.
[24] 李连星, 彭劲谕, 王大玮, 等. 长爪栘[木衣]叶绿体基因组特征系统发育及密码子偏好性分析[J]. 生物工程学报, 2022, 38(1): 328 − 342.

LI Lianxing, PENG Jinyu, WANG Dawei, et al. Chloroplast genome phylogeny and codon preference of Docynia longiunguis [J]. Chinese Journal of Biotechnology, 2022, 38(1): 328 − 342.
[25] PROVAN J, POWELL W, HOLLINGSWORTH P M. Chloroplast microsatellites: new tools for studies in plant ecology and evolution [J]. Trends in Ecology &Evolution, 2001, 16(3): 142 − 147.
[26] KAUNDUN S S, MATSUNOTO S. Heterologous nuclear and chloroplast microsatellite amplification and variation in tea, Camellia sinensis [J]. Genome, 2002, 45: 1041 − 1048.
[27] ZHANG Xinye, SHIRAISHI S, HUANG Minren. Analysis of genetic structure in population of Larix kaempferi by chloroplast SSR markers [J]. Hereditas, 2004, 26(4): 486 − 490.
[28] ZHAO Yuhui, LU Dengxue, HAN Rongbing, et al. The complete chloroplast genome sequence of the shrubby cinquefoil Dasiphora fruticosa (Rosales: Rosaceae) [J]. Conservation Genetics Resources, 2018, 10(4): 675 − 678.
[29] WANG Wenbin, YU Huan, WANG Jiahui, et al. The complete chloroplast genome sequences of the medicinal plant Forsythia suspensa (Oleaceae) [J/OL]. International Journal of Molecular Sciences, 2017, 18(11): 2288[2023-01-20]. doi: 10.3390/ijms18112288.
[30] KURLAND C, GALLANT J. Errors of heterologous protein expression [J]. Current Opinion in Biotechnology, 1996, 7(5): 489 − 493.
[31] QIAN Wenfeng, ZHANG Jianzhi. Codon usage bias and nuclear mRNA concentration: correlation vs. causation [J/OL]. Proceedings of the National Academy of Sciences, 2021, 118: e2104714118[2023-01-20]. doi: 10.1073/pnas.2104714118.
[32] GUSTAFSSON C, GOVINDARAJAN S, MINSHULL J. Codon bias and heterologous protein expression [J]. Trends in Biotechnology, 2004, 22(7): 346 − 353.
[33] BUTT A M, NASRULLAH I, TONG Yigang. Genome-wide analysis of codon usage and influencing factors in chikungunya viruses [J/OL]. PLoS One, 2014, 9(3): e90905[2023-01-20]. doi: 10.1371/journal.pone.0090905.
[34] BHATTACHARYYA D, UDDIN A, DAS S, et al. Mutation pressure and natural selection on codon usage in chloroplast genes of two species in Pisum L. (Fabaceae: Faboideae) [J]. Mitochondrial DNA Part A, 2019, 30(4): 664 − 673.
[35] GU Wanjun, ZHOU Tong, MA Jianmin, et al. The relationship between synonymous codon usage and protein structure in Escherichia coli and Homo sapiens [J]. Biosystems, 2004, 73(2): 89 − 97.
[36] INGVARSSON P K. Gene expression and protein length influence codon usage and rates of sequence evolution in Populus tremula [J]. Molecular Biology and Evolution, 2006, 24(3): 836 − 844.
[37] 尚明照, 刘方, 华金平, 等. 陆地棉叶绿体基因组密码子使用偏性的分析[J]. 中国农业科学, 2011, 44(2): 245 − 253.

SHANG Mingzhao, LIU Fang, HUA Jinping, et al. Analysis on codon usage of chloroplast genome of Gossypium hirsutum [J]. Scientia Agricultura Sinica, 2011, 44(2): 245 − 253.
[38] LIU Qingpo, XUE Qingzhong. Comparative studies on codon usage pattern of chloroplasts and their host nuclear genes in four plant species [J]. Journal of Genetics, 2005, 84(1): 55 − 62.
[39] PLOTKIN J B, KUDLA G. Synonymous but not the same: the causes and consequences of codon bias [J]. Nature Reviews Genetics, 2011, 12(1): 32 − 42.
[40] ZHOU Zhipeng, DANG Yunkun, ZHOU Mian, et al. Codon usage is an important determinant of gene expression levels largely through its effects on transcription [J/OL]. Proceedings of the National Academy of Sciences, 2016, 113(41): E6117 − E6125[2023-01-20]. doi: 10.1073/pnas.1606724113.
[41] ZHOU Tao, ZHU Honghong, WANG Jian, et al. Complete chloroplast genome sequence determination of Rheum species and comparative chloroplast genomics for the members of Rumiceae [J]. Plant Cell Reports, 2020, 39(6): 811 − 824.