Additional file 17: of Assessing the benefits of horizontal gene transfer by laboratory evolution and genome sequencing

Excel file S1. List of de novo mutations in coding regions found in sequenced clones isolated from HPA evolved populations. The coordinates of mutations are given in coordinates of (i) the E. coli K12 reference genome for mutations in genes from the recipient K12 genome (sheet 1), (ii) the E. coli W genome in genes transferred from the E. coli W donor in Re c K W $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{K}}^{\mathrm{W}} $$ clones (sheet 2), and (iii) the E. coli B genome in genes transferred from the E. coli W donor in Re c K B $$ \operatorname{Re}{\mathrm{c}}_{\mathrm{K}}^{\mathrm{B}} $$ clones (sheet 3) (In ' Re c Y X ’ $$ \operatorname{Re}{{\mathrm{c}}_{\mathrm{Y}}^{\mathrm{X}}}^{'} $$ ', X refers to the DNA donor identity, and Y refers to the recipient identity). Mutations are annotated according to the amino acid change they cause in the encoded polypeptide sequence. Specifically, the left first three-letter abbreviation denotes the original amino acid, the following number indicates its location, and the right abbreviation denotes the substituted amino acid. ‘fs’ denotes frameshift mutations, ‘del’ denotes a deletion, and ‘*’ denotes a stop-gain mutation. (XLSX 12 kb)

本Excel文件S1收录了从HPA进化种群中分离得到的测序克隆的编码区新发突变列表。突变坐标按以下三类标注：(i) 对于来自受体K12基因组的基因上的突变，采用大肠杆菌K12（E. coli K12）参考基因组坐标（对应工作表1）；(ii) 对于在"Rec_K^W"克隆（工作表2）中由大肠杆菌W（E. coli W）供体转移而来的基因上的突变，采用大肠杆菌W（E. coli W）基因组坐标；(iii) 对于在"Rec_K^B"克隆（工作表3）中由大肠杆菌W（E. coli W）供体转移而来的基因上的突变，采用大肠杆菌B（E. coli B）基因组坐标。在"Rec_Y^X"格式中，X代表DNA供体的菌株身份，Y代表受体菌株的身份。突变依据其在编码多肽序列中引发的氨基酸改变进行注释，具体规则为：左侧首个三字缩写代表原始氨基酸，其后的数字表示该氨基酸的序列位置，右侧缩写代表替换后的氨基酸。其中，"fs"表示移码突变，"del"表示缺失突变，"*"表示终止增益突变。（XLSX 12 kb）