Additional file 2 of The genome of a wild Medicago species provides insights into the tolerant mechanisms of legume forage to environmental stress

Additional file 2: Table S1. Estimation of genome size of M. ruthenica using 17-mer analysis. Table S2. Sequencing data generated from different platforms/strategies. Table S3 The assemblage summary of the M. ruthenica genome Version 0.8 before chromosome anchoring by Hi-C. Table S4. The assemblage summary of the M. ruthenica genome Version 1.0. Table S5. Genome estimation using RNA sequencing data. Table S6. Assessment of the transcript coverage with the transcritome assembly. Table S7. The prediction of repeat elements in the M. ruthenica genome. Table S8. Categories of transposable elements predicted in the M. ruthenica genome. Table S9. General statistics of predicted protein-coding genes in M. ruthenica. Table S10. General statistics of mapping rate to functional database of protein-coding genes. Table S11. General statistics of protein-coding genes of homolog species. Table S12. GO enrichment of unique genes in M. ruthenica. Table S13. General statistics of non-coding RNA of the genome. Table S14. Statistics of synteny blocks within M. ruthenica and M. truncatula, M. ruthenica and T. pratense, M. ruthenica and C. arietinum, and M. ruthenica itself. Table S15. The corresponding relationship of synteny blocks in M. ruthenica with M. truncatula. Table S16. Statistics of TFs in M. ruthenica, M. truncatula and M. sativa. Table S17. Information of FHY3/FAR1 genes in M. ruthenica. Table S18. Information of FHY3/FAR1 genes in M. truncatula. Table S19. The GO enrichments of expanded families. Table S20. The GO enrichments of contracted families. Table S21. The GO enrichments of lost genes in the genome of M. truncatula during domestication. Table S22. The GO enrichments of lost genes in the genome of M. sativa during domestication. Table S23. Statistics of transcriptome libraries. Table S24. TFs responsive to drought in M. ruthenica. Table S25. TFs responsive to drought in M. truncatula. Table S26. Resequencing data of 19 accessions. Table S27. Statistics and annotation of SNPs. Table S28. Candidate genes associated with drought tolerance analyzed by selective sweep. Table S29. The GO enrichments of candidate genes associated with drought tolerance analyzed by selective sweep. Table S30. The GO enrichments of drought-responsive genes from Zhenglanqi accession. Table S31. The GO enrichments of drought-responsive genes from Xinghe accession. Table S32. Classification of potential MYB target genes which were responsive to drought stress.

附加文件2：表S1。基于17-mer分析的扁蓿豆（*M. ruthenica*）基因组大小估算。表S2。不同测序平台与策略产生的测序数据统计。表S3。经Hi-C染色体锚定前的扁蓿豆基因组版本0.8组装统计概况。表S4。扁蓿豆基因组版本1.0组装统计概况。表S5。基于RNA测序数据的基因组参数估算。表S6。转录组组装的转录本覆盖度评估。表S7。扁蓿豆基因组重复序列预测统计。表S8。扁蓿豆基因组预测转座元件的分类概况。表S9。扁蓿豆预测蛋白编码基因的统计概况。表S10。蛋白编码基因功能数据库比对率统计概况。表S11。同源物种蛋白编码基因统计概况。表S12。扁蓿豆特异性基因的GO功能富集分析。表S13。基因组非编码RNA统计概况。表S14。扁蓿豆与蒺藜苜蓿（*M. truncatula*）、扁蓿豆与红三叶（*T. pratense*）、扁蓿豆与鹰嘴豆（*C. arietinum*）以及扁蓿豆自身的共线性区块统计。表S15。扁蓿豆与蒺藜苜蓿的共线性区块对应关系。表S16。扁蓿豆、蒺藜苜蓿与紫花苜蓿（*M. sativa*）的转录因子（Transcription Factors, TFs）统计概况。表S17。扁蓿豆FHY3/FAR1家族基因信息。表S18。蒺藜苜蓿FHY3/FAR1家族基因信息。表S19。扩张基因家族的GO功能富集分析。表S20。收缩基因家族的GO功能富集分析。表S21。蒺藜苜蓿驯化过程中基因组丢失基因的GO功能富集分析。表S22。紫花苜蓿驯化过程中基因组丢失基因的GO功能富集分析。表S23。转录组文库统计概况。表S24。扁蓿豆抗旱响应转录因子（TFs）统计。表S25。蒺藜苜蓿抗旱响应转录因子（TFs）统计。表S26。19份种质系的重测序数据。表S27。单核苷酸多态性（Single Nucleotide Polymorphisms, SNPs）统计与注释。表S28。通过选择性清除分析筛选的抗旱相关候选基因。表S29。选择性清除分析得到的抗旱候选基因的GO功能富集分析。表S30。正蓝旗种质系抗旱响应基因的GO功能富集分析。表S31。兴和种质系抗旱响应基因的GO功能富集分析。表S32。干旱胁迫响应潜在MYB靶基因的分类概况。