Comparative Transcriptome Analysis of Five Species of Lilium

doi:10.7525/j.issn.1673-5102.2021.04.017

Abstract

Abstract:

Lilium are perennial herbaceous plants with important ornamental value and some species are edible and medicinal. In the present study， the transcriptome of four species of Lilium（L. pumilum， L. davidii， L. lancifolium and L. brownii var. viridulum） was sequenced respectively， and the genes which involved in flower development were analyzed. Combined with the previous transcriptome data of L. brownii， the orthologous genes were selected by comparative transcriptome analysis. Positive selections were screened and their environmental adaptability were analyzed respectively. 44 565， 51 413， 41 638 and 44 716 unigenes were obtained from L. pumilum， L. davidii， L. lancifolium and L. brownii var. viridulum respectively by assembly. In order to understand the function of unigene， the unigenes were compared and annotated in the public database. 13 genes related to the development of flower were identified. A total of 8 247 orthologous genes were obtained in five species， and Ka， Ks and Ka/Ks values were calculated. 33 pairs of homologous genes were strongly positive selected in five species. Subsequently， GO and KEGG enrichment analysis and gene function annotation were carried out， and it was found that these genes were mainly related to plant defense and biosynthesis.

Key words: Lilium, transcriptome, flower development gene, orthologous gene, positive gene

CLC Number:

S644.1

Xue-Yan ZHAO, Si-Feng LI, Guo-Qing BAI, Wei-Min LI. Comparative Transcriptome Analysis of Five Species of Lilium[J]. Bulletin of Botanical Research, 2021, 41(4): 614-625.

Figures/Tables 9

Table 1

Table 2

Fig.1

Fig.2

Table 3

Fig.3

Fig.4

Table 4

Supplemental table The sequence information of identified genes involved in lily flower development

基因ID Gene ID	序列信息 Sequence information
Unigene0017918	GCCGCGGCAAGATCGAGATCAAGCGGATCGAGAACTCCACCAACCGCCAGGTCACCTTCTCCAAGCGCCGCAACGGCATCATCAAGAAAGCCCGTGAGATCAGCGTCCTCTGTGAGGCCCAGGTCTCCGTCGTCATCTTCTCCAGCTCCGGCAAGATGTCCGAGTACTGCAGCCCCTCCACCTCTCTACCGAAGATCCTTGAGAGGTATCAGGTGAACTGCGGCAAGAAGATCTGGGATCCAAAGCATGAGCACCTGAGCGCGGAGATTGATAGGATCAAGAAGGAGAATGATAATATGCAGATCCAGCTGAGGCATCTGAAGGGAGAGGATCTGAACTCGTTGCAGCCGAAGGAGCTGATCCCAATCGAGGAGGCGCTGGAGAATGGCATCAGGGGCGTCCGGGAGAAGCAGAATGATTTTCTGAGGATGCTCAAGAAGAATGAAAGGATACTGGAAGAGGATAACAAACGGTTAACTTATATACTGCACCATCAGCAACTGGCAATGGATGAAAATATGAGGAACTTGGAATTTGCATATCATAATAAAGATGGGGATTTCGGTTCCCAGATGCCAATGGCCTTTCGTGTGCAGCCAATCCAGCCTAATTTACATGAGGACAAGTAGTATGAGCATCTCCTGTGCCTGCTATTTTATTTAGACATCGAGTATCTAAAGAAATTTATTATCTGTTATTCTACATGCTTAATGTTATTATTTGATATTCTTATCTCTTGATGTTCATGTAGTAATTTGATAGTATAATCGTAATATTGGACTTCATAGTAAAGAAGCTAG
Unigene0027916	GGGTAAAAAAGAGTAAAGTTGAGATCAAATCCAACAAATCTTGCAACCCTTGTCTCTCCTCTCCTTATATTCCCTTCCTTTCTATAATTATCATCCTTTCTCCATTTCTTGAGAGAGAAGAGAGAGAGAGGGGATGGGGAGGGGAAGAGTGGAGCTGAAGAGGATTGAGAACAAGATCAACCGCCAAGTCACCTTCTCGAAACGCCGGAACGGGCTGCTGAAAAAGGCCTATGAGCTCTCGGTCCTCTGCGATGCGGAGGTCGCTCTCATCATCTTCTCCAGCAGAGGCAAGCTTTATGAGTTCGGCAGCGCAGGGACCAGTAAAACTCTTGAGCGTTACCAACGTAGTTGTTACACTTCTCAAGATACTAATGCCGTTGATCGCGAAACCCAGAGTTGGTATCAAGAAATGTCCAAATTGAAGATGAAATTTGAGTCTCTACAACGCTCCCAAAGGCATTTATTGGGAGAGGACCTCGGACCATTGAACGTGAAAGAATTACAGCAATTGGAACGCCAACTTGAATCTGCTTTGTCACAAGCTAGGCAAAGAAAGACTCAATTGATGTTGGAACAAGTGGACGAACTGCGTAAAAAGGAACGCCATCTCGGTGAAATTAACAAGCAACTAAAAAACAAGCTTGAGGCTGAGGGGTTTGACTTCCGATCTTTGCAAGTATCATGGGATACGGAGGATGTTGTTGGAGGAAATACATTTTCGCAGCATCATATGCCATCTAGTTCGATGACTATTGAACCCACTCTTCAGATGGGGTATCACCAATTTGTTCCTGCTGAAGAAGCTTCAATGCAAAGGAACACCGGTGCGGAGAATAATTTCATGCTAGGTTGGGTTCTTTGATTGAAGATTGGTTAGTACGTGTTATGTCTCGTAAAAGATCATCGGATTGTTTAACTATGTTTTCAGTTGCTTTCTTAGCTATTGTATTTCGACTTCTTTCAAATTTGCTGCTGTGGCTGATCTGCTTGTATCCGAAAGTTTTTGTTGTTGAAAATTTCATGCAGATTAATTACTGGATGGTTAGATGTATTGAATTCGGATGAATAAATTGTGTAAGGTGATGCTGTTTTTATGATGCAGCATT
Unigene0004890	AAAAGTTATGCATACCAGTACATAAACCTATACATAGATATAGTTATGCCCCCTTTCTTCGAGAGGGGTAACACCATAGCAAAACCAGATCTCTGCTGCTATAAGAATGATAGTGAAACTTAGCAGAATTCCCCGTAAAATAATTATGATGGGCGGGGAAGGTGATAGCTTATCTGTTAACGTGGCGAAGCATCCATGGCGGTAGTGAGCTGCTGCCAACACGCATCAGCGGCTGTTCAGCTGCCCCCTCGTCTGCGTCGCTGCTGCTGCTGCCTCTTTCTGGGTAGATTCCAGCGTTTTGGACGGGGTGCAAATGGGGCATTAGGAAAGGAGGGGGCCTTGTCATGGGCTGTTGTCCTTGTAGCTCCCAGTGATCTTGCTGTGTCAAAGCCTCCATCCTCTGGAACTCCATGAGCTTTTTCTCCATTATAGTGTTTTGTTCCCTCAGTGATTTCTCTGTTCGCTGGAGCTCGGTAATCGAATCAAACAATAGTTGGTGCTTCCTTGATCTTACATGCTTGAAAGATAATTCGAGCTGCTGCTCTAGTTGTTGGAGTTGTTTCAGAGTCAAGTCCTCAAGCTGCTCCCCCATGAGATGTCTTTGGCTTTTCTGCAAGGTTTCAACCTTAGCCTTCAGTCTCCCGTACTCTTGACACCAGTTTCCCTGTGCTTCAGGATATGTGTCTGTCACTGCAGTTTCTGCTTGAGAATAAAGCTCGTAACGTTCGAGAATCCTTTCCATG
Unigene0039518	AAGAAGATCGAAAACTCAACGAATCGGCAGGTCACTTACTCGAAGCGCCGGACTGGAATCATCAAGAAGGCGACTGAGCTCACTGTGCTCTGTGATGCCGAGGTCTCTCTCCTTATGTTCTCCAGCACCGGGAAGCTGTCAGAGTTCTGCAGCCCCTCCACAGACACGAAAAAGATCTTCGATCGCTACCAGCAGCTGTCTGGTATCAACCTCTGGAGCGCGCAATACGAGAAAATGCAAAACACTTTGAACCATCTGAGCGAGATCAACCGCAACCTTCGCAAGGAGATCAGCCAGAGGATGGGGGAGGAGCTGGATGGATTGGACATCAAGGACCTGCGCGGTCTTGAGCAAAATTTGGACGAAGCGCTCAAGCTCGTTCGTCACCGCAAGTATCATGTGATCAACACTCAGACAGAGACTTACAAGAAAAAGGTCAAAAACTCGGAAGAAGCACACAAGAACTTGCTCCGTGACCTGGTGAATCGAGAGATGAAAGATGAGAATCCAGTCTATGGTTATGTGGACGAAGACCCCAGCAACTATGATGGCGGCCTTGGTCTGGCCAATGGGGCTTCTCATCTGTACGAGTTCCGAGTCCAACCGAGCCAGCCAAACCTGCACGGGATGGGTTATGGCTCCCATGATCTCCGACTGGCTTGAAACCCTAATTCTGTAGGGTGCAGTGA
Unigene0040377	GAATAACGCTCATAGCGTTCCAGAATTCTTTCCATGCTAGCGTCAGTAGAGTACTCGTACAGCTTGCCCTTGGCGGAGAATACAACAAGAGCGACCTCTGCATCGCAGAGGACAGAGATCTCATGCGCCTTCTTCAGCAGCCCCGACCGCCGCTTCGAGAAGGTGACTTGCCGGTTGATCTTGTTCTCTATCCGCTTCAGCTGCACTCGCCCCCGGCCCATCTCCAGAAAACCCTAAAACTATTGAGATGGATGAGATATCCTCAGCTTATTGAAGAGTGAGGGGGAGACAGAA
Unigene0003323	CGCCAGAGGGAGTGAGTGAGACCCATAGAGGGAAATTTTGGAGGGAAAAAAATGGGGAGGAGGAAGAGGGAGATAAGGCGGATTGAGGACACCAACAGCCGCCAGGTCACTTTCTTGAAACGCGGCAGTCGGCTGCTGAAGAAGGCTTCAGAGCTCTCCGTGTTTTGCGATGCCGAGGTTGCGCTGATCGTCTTCTCACCCATGGGCAATCTCTGCGAGTTCTCCAGCTGCAGGTTAGGGTGGTATCGGTTCCAATCAAGGAGTATCCTGCTTGGCCGCCTGCAACGCGGACCAGCTGATTGGAATTTTGTTTATAATGCTGCTACTTTTAGAATAAC
Unigene0026977	AGAGCTTTCTTCTCAATTACCAAAAGTATAATATTTCCTCTTGTGGTTCTAAATACAAATATTGCTCATAGATGGAGCCTATACCTCAACTCTACTTTTAGTGTATATTTAGCATATACAAATATATTTTCTAATTCTTTTATCATTATGGTCCTTACCCTATGTTCGCATTTATCTGAACAATGCTGCCTTCATAGGCAGCAGCGGTTCCTTCATACGCAGCAGCGGAGCATGATGCATTCTCGTTCCCTGGCATATGCGAGCAGTTCGCAGATGGATCCAGCTGCTCATGTGGCACCATCGATGGCAGCTCCGCTGATGCCATTGAATGCTGGATCATCGGGTAGGGACCAGTGGGGATGAGAGACGAGAGGAGCTCAGTAGAGGTGTATGCCTGGTGGTGGTGCCACATGTCGTTTTGACTGTTTATGTGACAACCATCCATGCTGGGATCCACCTGTAGCCCTGTGTTCTGGTGGATCGGGTTGTAAATCCCTTGATCCCTGAGGGACATTAGTAGATCGGACCCAACAAACATCTGATGGCCTGAGTTGGATGTTCCCTCAGTGATCCATTGGACCATCTCGTTTCCGAACGCATTGGGGATTCCTTCTTGATGAGGTTGCATGTACATCTGCATATTAGATGTAGAGGGATCGAATGTCGACAGATGATTATTTAGCAAATATTTCTTTCTCTCGTTAACTCTTGTTAGTGTCTCAATGAGGAACTTTTCACAAGTTTGCAGCTCATCCATTGATCCCATACTCAAAGGATCCGGCTCGAAACACCTTAATTGATTTTCCGAGTGTTGTAATTGTTCTTGGTATCTACTAATCTCTTGGTGGAGCTCCTCCATGTTGGAGTTACACACCCCAGGATTGGCTATTTGGGCCGCCATGTCACTCTCGCACTTTAGCTTCTTCAAGGTTCTGATTAAGTATTCTCTATTTTGGATCACTCCTCCCCGATCGTGCTCCGGGAGGCTGATGTATCGAGCGAGAACATCCTCGATCCTTCGACGGCCGGAGAAGTGGCTGAGGCGGCCGGAGGGGGAGAACATGATTAGGGCAATGTCGATGTCGCAGAGGATGGAGAGCTCGTAGGCCTTCTTGATGAGGCCATTGCGACGCTTGGAGAAGGTGACTTGGCGATTGGTGTTGTTCTCGATCTTCTTGATTTGGAGCTTTACGCGGCCCA
Unigene0031138	AACATGAGATAGATATCAACTTCAACAGGCCTTCAGAAGGAAATATGCAGCAACTGCAGTGTGAAGCCGAGGGCCTCGCGAAGAGGATTCAAATCCTTGAAGATTATAAACGGAAGGTGATGGGTGAAAATCTGGAAACGTGTTCAATTGAAGAACTTCATGAATTAGAGGGTCAATTAGAGCAAAGTTTGAGCAAAATCAGACAAAAGAAGAATCACGAACAATCAGAGCAAATTGTGCAGTTAAAAGAACAGTTGTCTTCTTGCATTTTGCTCACAAAAATTCAGGAGAGGATTCTGTTGGAGAAGGAGAGGATTCTGTTGGAGAAGAATGCATCATTACAAGAAAAGGACACTGATTCTACAGAAGTTCTAGATGCTGACATGGAGGTACTCACGGAGCTGTTTATCGGGAGGCCTGGGTGCAGTAAAA
Unigene0025453	TTAGTTTACATACATATCGTAACACTCAAAAATGAATCCGTTACACAAATAATCGAATCTCTATTTCTCAGATATAATGTACAACCTGAGGACAATATGCTTTATCTATCATGACACTATACAACGAAAGTTTTATATACGACGTATAACAGCTGAAATAATTTGAGAATCAGTATTGTTAAAACAGGTCCTGTATTTGTATAAGAGTAGCTACATACATCCCCACTATTAGTCCAGTGCCCGTCGTTGAATTAAATGACGATACCGGCGTATTTTCATTGACTGGAGGCGAGCCTAGGGGATGAACACTGCACAGGCTCAGGTGCTGTATGATCTACTGAATCTGGTCTGGTTGTTGGGGGTAAGGATGGTTATCAAACATGGGAACAGACGTGGAAGCCCATGTCTCGATGTTGGCATCATATTCAGGCCCAGGGGGCTCAAAACCATTAACTTGGTAATCAACCCGGCCCTCCTGTAAGCTAATTTCTGCATCGGGGTTGAACTTATTCTCGCTAAGCAAATTCATTCCATACGACTGATTAGGGTAGTGGCCTCCAAGCTGCAGTTGCAAGCATGAGTTTTGGCTCAAATCTAACTGCTCTTTGGTGTCTACCTGCTTTCCCATGGTAAAGTAACCAGGAAAGCCTTGAAGAGACCCTTCTGCGGAGCACTCAATATCTCTTTGGGAAAGCAGATTAGGGCCTTCTGGAAGCATCATGTGTGAACCATTACAGTCCTGAAGCCATTGCATATGTGACAGTTGTTGCTCGCCGTTAATTGTCAGGGGTAAATGCATACCATTCTGGAACTGGCCAGAACATTCTAATGACATAATTTGCTGCTTTCCCAGGTTTTCCTTGTGCATTCTGATTCGGTTCACAGACTCTTCAAGGGATTCCTCCATTGCTCTGATATGATCTATACTGTTGATCTTATCGATATCTTTCCAATAACTTAGTCTCTTTTCAGCGTCTGATATCTGAGCTTGCAAGAACCTTGAGTGATTTGTCAATTCCTCAATTGTTTGGGTGCTTGAACCTAGAAAATCTTGTATATTGACATCATGGTCGAGCTTCTTGAATGTCTTCTTCAGTGCTTCAAGGCTCTCCAACTTCCTCTTTGCCCTCTCCTGTGGAGTTAACTGAGCAAACTTCGAAATGACCTCCTCAATATTGCTGCGATCTCCCAGGCACATTGTTGGCTTCCCAGTCGGCGAGAACATGAGAAGGATGATATCAATGTCGCACAAAATCGATAGCTCCTTGGCCTTCTTTAGGATCCCGGCTCTCCGTTTAGAGTAAGTCACCTGCCGCGCACTGGTATTCTCCAATCTCTTGATTTTCAACTTCACCCTCCCCATCTGATCACCCTTGTGCTTAAAAGGGAATCGAGATAACCCTCGAAAAACAAAGGACCCAAATGCAATCAAGGCAACTGTCTCAAAATTCGTCCGATGTGCAACCGAATCAATAGATGGTATGAAAAAATTGCGAGAACCCAGAATTCGGAAGGGAAGAAGGACGCTGATGAAGATCAAAATAGGCAATTAGAATGAAAATTGAGGGTATCCCAATTCAGAGAATTGGACAACAAGCACGGGTTGGGAGTTCCGGAGATAGAACATCAAGAACACGATCTGT
Unigene0031144	GCAATAGAGCAACCCTTGAGCGAGGGAGGGAGTGACAATCATAGAGGGAATTTTTTTGGAGGGAAAAAATGGCGAGGAGGAAGAGGGAGATAAGGCTGATTGAGGACACCAACAGCCGTCAGGTGACTTTCTCGAAGCGCGGCAGTGGGCTGCTGAAGAAGGCTTTCGAGCTCTCCGTGCTTTGCGATGTCGAGGTTGCGTTGATCGTCTTCTCACCCAAGGGCAAGCTCTGCGAGTTCTCCAGCTCCAGCATGCAAAGTACAATCGATCATTATCTGATGCATGAGAAAGATATCGACATAAGCAGGCTTTCAGAAAAAAATATGCAGCAAATGGAATGTGAATCTGCGGATCTCATGAAGAGCATTGAAATCCTTGAAGATTATAATAGGATGCGGTTGTGTGAAAATCTGGAAACATGTTCAATTGAAGAACTTCATGAAATAGAGGGTCAGTTAGAGCAAAGTTTGAGAACAATCAGACAAAAGAAGAATCACATTATATCAGAGCAAATTGCGCAGTTAAAAGAAAAGGAGAGGATTCTGTTGGAGAAGAATGCATCATTACAAGAAAAGTTCAAGGAAAAAACTCCACAACAGAAAACTGATTCTACGGAAGTTCTAGATGCTGACATGGAGGTGCTCACTGAGCTGTTTATTGGGAGGCCTGGGTGCAGCAAAACCCGAAGCATGCCAAGAGGTTGATTGAAATGCATGAGGCGCCGGGCAAGAGCCGGGAGCGGCAGATCGGACAATTCACATCGACCCCGCTTTGTCTTGACGGGGGAGGCGAACCGGACGACGGTCAGCTTTGTCTTGACGGGGGCGGCGACAGAGCGAGCGGAGGGGAAGCGGAGCACGGCGGTGATGATGGGGTTCGTGGAGGAGA
Unigene0042321	TTTGAGATCACGCAACTGATCAAGTATTATCTGAGTCTTTTTCGACCTGATCTGATTTAAAGACTTCTCTAGTTGATTGTCAAGTTGTTCGAGTTCCTTGTTACTAAGTTGACCCAAGTTCTCGCCAAGGAGATTTCTACAATTCCACGGTTAAGAGTTTCATTAGCGAAATGGTTTACAACATAGATATTGCTACTACGGATTACAGATTTG
Unigene0008053	GTGGTGGAATTGAGACACTACAGATCACAGAAGCCTTCGGTGAATTCAGGTCTGGAAAGACACAGATAGCTCACACCCTCTGCGTGTCAACACAGTTGCCGGTGAGCATGCATGGAGGCAACGGCAAGGTCGCTTACATCGACACAGAAGGCACATTCCGACCAGACCGCATTGTACCAATTGCAGAGAGATTTGGAATGGACGCGAGTGCAGTACTGGACAATATCATATATGCGCGGGCATACACCTACGAGCACCAGTACAACCTTCTTCTTGCTCTAGCTGCCAAGATGTCTGAAGAGCCTTTCCGGCT
Unigene0027070	TCAGCCTCTCATTTCGGGGGAAAGAGGAAGCCCTAGAGCGCCGCCGCGTACCGATCCTCTCAATCGCTGCTCACAGATAAATTGAAGAGCTCTTCACCAGCTACCACCTGCTCACTTTATTTAAATTGTCAAGCCCATCGTCTGGGAGTACAATGAATGCCAAGAGTTGTCTCCTACTTACCTATTCATCTGAGGTTTTGAATGGAGTACCCTTATTCTTCGCATCTAATTGCCTCCCTGTGAAGGCTGTGAATCAAGAACCTGCTGGGCATGCGTTCCATGATGCTGCGCTTAAACTTTGCGGTTTGTTCGAAGAAGATGTAGTCACAGATGATCAAAGCGAGTCATCAGATGATCGAGGTCCAGCATTTATGGCATCATCAGATTCATATAGAAGCAAAAGCAAAAAGAAATCTGCTGGTAAAAGTGACCAACAAGACCACTATGCATTGCTAGGCTTGGGCCATCTACGTTTTCTGGCCACTGAGGAGCAGATACGTAAAAGTTACCGGGAAACTGCTTTGAAGCATCATCCTGACAAACAGGCTGCCCTTCTCCTTACTGAAAAAACAGAAGCTTCAAAGCAAGCAAAGAAGGATGAGATTGAAAACCATTTCAAAGATATTCAAGAAGCTTATGAAGTTCTAATTGATCCCGTGAGAAGAAGGGTCTATGACTCAACAGATGAGTTTGATGATGAAGTGCCGAGTGACTGTGCACCACAAGACTTCTTTAAGGTGTTTGGCCCAGCATTTATGAGGAACGGGAAATGGTCTGTAGTCCAGCCAGTTCCTTCCTTGGGGGATGATAAAACTTCACTGGAAGAGGTGGACAACTTTTACGACTTTTGGTATGCATTTAAGAGTTGGAGGGAGTTCCCACATGCAGATGAGTTCGAGCTAGAGCAATCAGAGTCTCGTGATCATAAGAGATGGATGGAAAGGCAGAATGCAAAGCTGAGAGAAAAGGCGAGGAAGGAAGAGTATGCACGTGTTCGTTCCCTTATTGATAATGCTTACAAGAGGGACCCCAGACTCCTTCGGAGAAAGGAACAGGAGAAAGCAGAGAAGCAGAGGAGAAAAGAGGCAAAGTATATGGCGAAGAAATTGCAAGAAGAAGAGGCAGCTAGAGCTGTTGAGGAAGAGCGGCTCCGCAAGGAGGAGGATGAAAAAAAAGCAGCAGAGGCTGCTGTGATTAATAAGAAGATAAAGGAAAAGGAGAAGAAGCTCTTGCGCAAGGAGAAGACTCGCCTTCGCACGTTATCAGTATCACTAGTGTCAGATTCTTTGCTTGATCTAACGGAGGATGATGTGGAAAAAACATGCAACTCTTTTGGATTGGAGCAGCTTCGTCATCTCTGTGACGGCATGGAAGGTAGGGAAGGAATTGAGAGGGCTCAACTGCTCAAAGCTGCAGTCAGTGGTGATATGTTGGAGATCTCTAAGAAGGAACCTAATGATTTGAAACCAAATGGTTCCACGAATTCGGGCCCGAAAAGTAATGGTTCTGTAACTTCAGCGAAACCAGTAATTATGATGTCCAGCTACGAAAAGAAAGAGAAGCCTTGGGGTAAGGAAGAGATAGAGTTGCTGAGAAAGGGTATCCAGAAATATCAGAAGGGGACATCTCGTAGGTGGGAAGTTATTTCAGAGTATATCGGCACTGGGAGATCGGTTGAAGAAATCCTAAAAGCCACAAAGACTGTTCTTCTCCAAAAGCCTGATTCTTCTAAAGCTTTTGACTCCTTCCTTGAGAAAAGGAAGCCGGCGAAAGCCATTGTGTCACCCCTTACGACCAGACTTGAATCAGAAGGTTCCACTGTTGAGGCAGGAGATGCATCTTCTAAATCAATACCAACACCGTCTTTGAGCAGCAGCAGTCCTGAAAAGCCAGACGGTACTCCTGTTTCCCTTCCCAATGGGGTTCCTTCTGTCCCTGAACAAGACACATGGTCTGCTACCCAAGAAAGAGCTCTCATTCAGGCGCTAAAGACTTTCCCAAAGGATGTGAATCAGCGTTGGGAACGGGTTGCTGCTGCTATTCCCGGGAAAACCATGAACCAGTGCAGAAAGAAATTTTTATCAATGAAGGAGGACTTTCGAAGCAAGAAGAGTGGTTAAGTCTTTTTTCTTTTGCAGGTAAGTTCAATATAGAACTAAAAAAAGATGACCTCTTCATCATGGTGCTGAAATTTTCCTCATTACTGGGCTTAGCTGCAGTTATATCTGGGTGCTCTTTTTCCCGCAACAGAAGTTTTTGTGATGCTTTAGGATGTAGAACTAGATGGGTATGTTTATTTAAGACACAACTTTGGTGAGATCTGACAGTTGCTACTCTTTCATATGTATGAAAGTTTTGCAAGCTCCTTGATGGGAGTTGGAAGCCCAGGCTCCTGACAAACAAATGGTTGCTGAAACATCAGACTGGAGTATAATCATCAAACCTAAAGGTATATTTATTTCTTAATGATCTCGAGAAATTTATTCATGTGATGCTGTTCAAAAGAGTTGGTGTAGCTCTATGTCGGCAATTTTGCAGTGACAATTATTTAGCCATCTGATGC

References 37

1	李金鹏，郑春雨，刘井莉.百合属植物的研究进展［J］.北方园艺，2013，（7）：197-200.
	Li J P，Zheng C Y，Liu J L.Research progress on Lilium plants［J］.Northern Horticulture，2013，（7）：197-200.
2	胡悦，杜运鹏，田翠杰，等.百合属植物化学成分及其生物活性的研究进展［J］.食品科学，2018，39（15）：323-332.
	Hu Y，Du Y P，Tian C J，et al.A review of chemical components and their bioactivities from the genus Lilium［J］.Food Science，2018，39（15）：323-332.
3	杨柳慧，汪王，刘艳秋，等.细叶百合LpWRKY20基因的克隆和表达分析［J］.西北林学院学报，2019，34（3）：104-110.
	Yang L H，Wang W，Liu Y Q，et al.Cloning and expression analysis of LpWRKY20 gene from Lilium pumilum［J］.Journal of Northwest Forestry University，2019，34（3）：104-110.
4	中华人民共和国药典委员会.中国药典［M］.北京：中国医药科技出版社，2015：132.
	Chinese Pharmacopeia Committee.Phamacopoeia of the People’s Republic of China［M］.Beijing：China Medical Science and Technology Press，2015：132.
5	张卫，王嘉伦，张志杰，等.经典名方药用百合本草考证［J］.中国中药杂志，2019，44（22）：5007-5011.
	Zhang W，Wang J L，Zhang Z J，et al.Herbal textual research on triditional Chinese medicine “Baihe”（Lilii Bulbus）［J］.China Journal of Chinese Materia Medica，2019，44（22）：5007-5011.
6	周佳民，宋荣，曹亮，等.不同百合（品）种生长发育特性、光合特性的比较分析及综合评价［J］.中国中药杂志，2019，44（21）：4581-4587.
	Zhou J M，Song R，Cao L，et al.Comparative analysis and comprehensive evaluation for growth and photosynthetic characteristics of different lily species and varieties［J］.China Journal of Chinese Materia Medica，2019，44（21）：4581-4587.
7	苏菁华.渥丹与川百合组培快繁体系的研究［D］.武汉：华中农业大学，2014.
	Su J H.Researches on tissue culture and rapid propagation of Lilium concolor and Lilium davidii［D］.Wuhan：Huazhong agricultural university，2014.
8	Ai B，Gao Y，Zhang X L，et al.Comparative transcriptome resources of eleven primulina species，a group of “stone plants” from a biodiversity hot spot［J］.Molecular ecology resources，2015，15（3）：619-632.
9	刘合霞，李博.牛耳朵与黄花牛耳朵比较转录组学分析［J］.分子植物育种，2019，17（6）：1853-1863.
	Liu H X，Li B.Comparative transcriptome analysis of Primulina eburnea and Primulina lutea［J］.Molecular Plant Breeding，2019，17（6）：1853-1863.
10	赵建花.地黄属五种植物的比较转录组研究［D］.西安：西北大学，2017.
	Zhao J H.Comparative transcriptome analysis on five species of Rehmannia［D］.Xi’an：Northwest University，2017.
11	Guo W H，Jeong J，Kim Z，al Wet.Genetic diversity of Liliumtsingtauense in China and Korea revealed by ISSR markers and morphological characters［J］.Biochemical Systematics and Ecology，2011，39（4-6）：352-360.
12	梅芳，李晓玲，张德春.神农架自然保护区宜昌百合染色体核型分析［J］.安徽农业科学，2011，39（20）：12111-12112，12115.
	Mei F，Li X L，Zhang D C.Karyotype analysis of Lilium leucanthum（Baker） Baker in Shennongjia national nature reserve［J］.Journal of Anhui Agricultural Sciences，2011，39（20）：12111-12112，12115.
13	Du Y P，He H B，Wang Z X，et al.Molecular phylogeny and genetic variation in the genus Lilium native to China based on the internal transcribed spacer sequences of nuclear ribosomal DNA［J］.Journal of Plant Research，2014，127（2）：249-263.
14	Li L，Stoeckert C J JR，Roos D S.OrthoMCL：identification of ortholog groups for eukaryotic genomes［J］.Genome Research，2003，13（9）：2178-2189.
15	Young M D，Wakefield M J，Smyth G K，et al.Gene ontology analysis for RNA-seq：accounting for selection bias［J］.Genome Biology，2010，11（2）：R14.
16	Yang Z H.PAML 4：phylogenetic analysis by maximum likelihood［J］.Molecular Biology and Evolution，2007，24（8）：1586-1591.
17	Kanehisa M，Araki M，Goto S，et al.KEGG for linking genomes to life and the environment［J］.Nucleic Acids Research，2008，36（Database issue）：D480-D484.
18	Grabherr M G，Haas B J，Yassour M，et al.Full-length transcriptome assembly from RNA-Seq data without a reference genome［J］.Nature Biotechnology，2011，29（7）：644-652.
19	Prasad K，Vijayraghavan U.Double-stranded RNA interference of a rice PI/GLO paralog，OsMADS2，uncovers its second-whorl-specific function in floral organ patterning［J］.Genetics，2003，165（4）：2301-2305.
20	Tzeng T Y，Chen H Y，Yang C H.Ectopic expression of carpel-specific MADS box genes from lily and lisianthus causes similar homeotic conversion of sepal and petal in Arabidopsis［J］.Plant Physiology，2002，130（4）：1827-1836.
21	杨梁，王爱然，唐金富，等.百合花发育的分子生物学研究进展［J］.华北农学报，2006，21（S1）：81-85.
	Yang L，Wang A R，Tang J F，et al.Research progress of molecular biology about flower development in Lily［J］.Acta Agriculturae Boreali-Sinica，2006，21（S1）：81-85.
22	Jeon J S，Lee S，Jung K H，et al.Production of transgenic rice plants showing reduced heading date and plant height by ectopic expression of rice MADS-box genes［J］.Molecular Breeding，2000，6（6）：581-592.
23	Ohmori S，Kimizu M，Sugita M，et al.MOSAIC FLORAL ORGANS1，an AGL6-like MADS box gene，regulates floral organ identity and meristem fate in rice［J］.The Plant Cell，2009，21（10）：3008-3025.
24	Wang S，Huang H J，Han R，et al.Negative feedback loop between BpAP1 and BpPI/BpDEF heterodimer in Betula platyphylla × B.pendula［J］.Plant Science，2019，289：110280.
25	Nagasawa N，Miyoshi M，Sano Y，et al.SUPERWOMAN1 and DROOPING LEAF genes control floral organ identity in rice［J］.Development，2003，130（4）：705-718.
26	Lee S，Jeon J S，An K，et al.Alteration of floral organ identity in rice through ectopic expression of OsMADS16［J］.Planta，2003，217（6）：904-911.
27	Wang S，Huang H J，Han R，et al.BpAP1 directly regulates BpDEF to promote male inﬂorescence formation in Betula platyphylla × B.pendula［J］.Tree Physiology，2019，39（6）：1046-1060.
28	Adamczyk B J，Fernandez D E.MIKC* MADS domain heterodimers are required for pollen maturation and tube growth in Arabidopsis［J］.Plant Physiology，2009，149（4）：1713-1723.
29	Bemer M，Hvan Mourik，Muiño J M，et al.FRUITFULL controls SAUR10 expression and regulates Arabidopsis growth and architecture［J］.Journal of Experimental Botany，2017，68（13）：3391-3403.
30	Schönrock N，Bouveret R，Leroy O，et al.Polycomb-group proteins repress the floral activator AGL19 in the FLC-independent vernalization pathway［J］.Genes & development，2006，20（12）：1667-1678.
31	Soyk S，Lemmon Z H，Oved M，et al.Bypassing negative epistasis on yield in tomato imposed by a domestication gene［J］.Cell，2017，169（6）：1142-1155.e12.
32	Nara T，Saka T，Sawado T，et al.Isolation of a LIM15/DMC1 homolog from the basidiomycete Coprinus cinereus and its expression in relation to meiotic chromosome pairing［J］.Molecular and General Genetics，1999，262（4）：781-789.
33	Mori T，Kuroiwa H，Higashiyama T，et al.Identification of higher plant GlsA，a putative morphogenesis factor of gametic cells［J］.Biochemical and Biophysical Research Communications，2003，306（2）：564-569.
34	孟祥鹏.拟南芥抗病基因RIN4和RPM1的克隆及在大豆中的功能验证［D］.长春：吉林农业大学，2018.
	Meng X P.Cloning of arabidopsis resistance gene RIN4 and RPM1 and functional verification in soybean［D］.Changchun：Jilin Agricultural University，2018.
35	王玉，杨雪，杨蕊菁，等.调控苯丙烷类生物合成的MYB类转录因子研究进展［J］.安徽农业大学学报，2019，46（5）：859-864.
	Wang Y，Yang X，Yang R J，et al.Advances in research of MYB transcription factors in regulating phenylpropane biosynthesis［J］.Journal of Anhui Agricultural University，2019，46（5）：859-864.
36	Zhao L，Zhang N，Ma P F，et al.Phylogenomic analyses of nuclear genes reveal the evolutionary relationships within the BEP clade and the evidence of positive selection in Poaceae［J］.PLoS One，2013，8（5）：e64642.
37	Zhang J，Xie P H，Lascoux M，et al.Rapidly evolving genes and stress adaptation of two desert poplars，Populus euphratica and P.pruinosa［J］.PLoS One，2013，8（6）：e66370.

	细叶百合 L. pumilum	川百合 L. davidii	卷丹 L. lancifolium	百合 L. brownii var. viridulum
组装的总碱基 Total assembled bases	31 251 564	37 017 020	28 657 033	32 992 838
Unigene数目 Unigene number	44 565	51 413	41 638	44 716
GC含量 GC percentage(%)	48.25	47.91	47.34	47.76
N50	1 066	1 149	1 017	1 183
平均长度 Average length	701	719	688	737

	野百合 L. brownii	细叶百合 L. pumilum	川百合 L. davidii	卷丹 L. lancifolium	百合 L. brownii var. viridulum
Nr	28 104	28 681	31 641	26 438	29 932
Swiss-prot	17 739	18 283	20 390	17 381	19 951
GO	6 494	6 785	7 398	6 475	7 360
KOG	14 682	14 958	16 619	14 371	16 268
KEGG	11 984	12 557	13 570	11 960	13 247
所有注释的基因数目 All annotation unigenes	28 187	28 709	31 827	26 527	30 025
注释基因的百分比 The percentage of annotated unigenes(%)	68.89	55.23	61.54	56.96	48.93

基因ID Gene ID	基因 Gene	蛋白质 Protein
Unigene0017918	MADS2	MADS盒转录因子2 MADS-box transcription factor 2
Unigene0027916	MADS6	MADS盒转录因子6 MADS-box transcription factor 6
Unigene0004890	MADS14	MADS盒转录因子14 MADS-box transcription factor 14
Unigene0039518	MADS16	MADS盒转录因子16 MADS-box transcription factor 16
Unigene0040377	AGL8	无性MADS盒蛋白AGL8 Agamous-like MADS-box protein AGL8
Unigene0003323	AGL15	无性MADS盒蛋白AGL15 Agamous-like MADS-box protein AGL15
Unigene0026977	AGL104	无性MADS盒蛋白AGL104 Agamous-like MADS-box protein AGL104
Unigene0031138	AGL19	无性MADS盒蛋白AGL19 Agamous-like MADS-box protein AGL19
Unigene0025453	AGL30	无性MADS盒蛋白AGL30 Agamous-like MADS-box protein AGL30
Unigene0031144	SOC1	MADS盒蛋白SOC1 MADS-box protein SOC1
Unigene0042321	EJ2	MADS盒蛋白EJ2 MADS-box protein EJ2
Unigene0008053	LIM15	减数分裂重组蛋白DMC1同源体 Meiotic recombination protein DMC1 homolog
Unigene0027070	GlsA	无性生殖细胞形成蛋白GlsA Gonidia forming protein GlsA

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