Keio コレクション - 全ゲノム配列情報
BW25113株の全ゲノムをSolexaシークエンサー(イルミナ)によって解読しました。
解読したゲノムは、大腸菌W3110のゲノム配列(アクセションナンバー AP009048)と比較しました。
W3110と異なる箇所が40カ所見出されました。そのうち、BW25113では欠失している配列が18カ所、
挿入配列がある場所が4カ所、ミスマッチ変異が18カ所見出されました。挿入配列、ミスマッチ変異の
箇所に関しては、その領域をPCRで増幅し、シークエンスで確認しました。
文責 塩見 大輔(仁木研究室)
解読したゲノムは、大腸菌W3110のゲノム配列(アクセションナンバー AP009048)と比較しました。
W3110と異なる箇所が40カ所見出されました。そのうち、BW25113では欠失している配列が18カ所、
挿入配列がある場所が4カ所、ミスマッチ変異が18カ所見出されました。挿入配列、ミスマッチ変異の
箇所に関しては、その領域をPCRで増幅し、シークエンスで確認しました。
文責 塩見 大輔(仁木研究室)
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Differences between BW25113 and W3110
AP009048 (W3110) 4646332 bp
*Number shows location in genome of W3110 (AP009048)
(1) regions deleted (18)
Start - End | Gene | Confirmation by PCR and sequencing after the whole genomic sequencing |
---|---|---|
66,533 - 70,072 | araBAD | |
363,580 - 365,642 | lacZ | |
654,214 - 655,407 | IS (insH) | |
1,105,622 - 1,106,951 | IS (insD) | |
1,301,041 - 1,302,369 | IS (insC) | |
1,980,209 - 1,981,402 | IS (insH) | |
2,176,983 - 2,178,176 | IS (insH) | |
2,320,795 - 2,322,124 | IS (insC) | |
2,411,459 - 2,412,225 | IS (insB) | |
2,526,403 - 2,526,947 | valUXY, lysV | |
3,261,134 - 3,262,328 | IS (insH) | |
3,539,230 - 3,542,690 | rhaBAD | |
3,742,936 - 3,751,785 | ||
(3,742,936 - 3,744,263) | IS (insDC) | |
(3,746,911 - 3,748,105) | IS | |
(3,750,591 - 3,751,785) | IS (insH) | |
4,310,363 - 4,311,557 | IS (insH) | |
4,371,274 - 4,371,275 | dcuA frameshift |
(2) regions inserted (4)
Position | Gene | Confirmation by PCR and sequencing after the whole genomic sequencing |
---|---|---|
around 370,970 | mhpC | not yet confirmed because of failure of PCR |
547,835 - 547,836 G was inserted | ylbE | confirmed |
around 2,564,140 | eutB-eutA | not yet confirmed because of failure of PCR |
around 4,215,890 | rrlE | not yet confirmed because of failure of PCR |
(3)Mismatch (18)
Position | Gene | Confirmation by PCR and sequencing after the whole genomic sequencing | |
---|---|---|---|
70,289 T | between araB and araC | not yet confirmed because of failure of PCR | |
365,743 ? | lacI | not yet confirmed because of failure of PCR | |
502,653 T | between ybaL and fsr | C-->T, confirmed | |
547,694 G | ylbE | A-->G, confirmed | |
705,435 C | nagE | T-->C, confirmed | |
1,093,686 C | ycdT | T-->C, confirmed | reported as difference between W3110 and MG1655 by Hayashi et al., 2006 |
2,034,560 G | yedJ | A-->G, confirmed | reported as difference between W3110 and MG1655 by Hayashi et al., 2006 |
2,842,666 T | hycG | G-->T, confirmed | |
2,866,111 G | between rpoS and nlpD | A-->G, confirmed | |
3,109,077 A | pheV (tRNA Phe) | C-->A, confirmed | |
3,472,558 C | btuB | G-->C, confirmed | |
3,475,433 A | fabR | C-->A, confirmed | |
3,542,911 A | rhaD | not yet confirmed because of failure of PCR | |
4,154,211 G | crp | T-->G, confirmed | reported as difference between W3110 and MG1655 by Hayashi et al., 2006 |
4,479,514 G | yjgJ | A-->G, confirmed | |
4,590,160 A | hsdR | G-->A, confirmed | predicted from genotype of BW25113 |
4,607,189 T | yjjP | C-->T, confirmed | |
4,621,349 T | yjjI | G-->A, confirmed |