RNase Y targets - Revision history

Jstuelk at 17:19, 30 May 2018

2018-05-30T17:19:03Z

Jstuelk: /* RNAs directly cleaved by RNase Y */

2018-05-30T12:01:30Z

‎RNAs directly cleaved by RNase Y

Jstuelk: /* RNAs directly cleaved by RNase Y */

2018-05-30T11:39:28Z

‎RNAs directly cleaved by RNase Y

Jstuelk: /* RNAs that are targeted by RNase Y */

2015-02-04T12:56:53Z

‎RNAs that are targeted by RNase Y

Jstuelk: /* RNAs directly cleaved by RNase Y */

2014-01-13T08:18:09Z

‎RNAs directly cleaved by RNase Y

Jstuelk: /* Important publications on RNase Y targets */

2013-03-27T11:33:29Z

‎Important publications on RNase Y targets

Jstuelk: /* Important publications on RNase Y targets */

2013-01-25T17:46:20Z

‎Important publications on RNase Y targets

Jstuelk: /* Important publications on RNase Y targets */

2012-07-31T10:30:53Z

‎Important publications on RNase Y targets

Jstuelk: /* Important publications on RNase Y targets */

2011-11-19T18:28:04Z

‎Important publications on RNase Y targets

Jstuelk at 08:05, 17 August 2011

2011-08-17T08:05:51Z

@@ Line 4: / Line 4: @@
 = RNAs that are targeted by [[rny|RNase Y]]=
-=== RNAs directly cleaved by [[rny|RNase Y]] ===
+=== mRNAs directly cleaved by [[rny|RNase Y]] ===
-* the [[S-box]] [[riboswitch]] RNAs ''in vivo'' and ''in vitro'' {{PubMed|19779461}}
+* processing of the ''[[gapA]]'' operon mRNA between ''[[cggR]]'' and ''[[gapA]]'' (''[[cggR]]-[[gapA]]-[[pgk]]-[[tpi]]-[[pgm]]-[[eno]]''), requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222,19193632}}
-* processing of the ''[[gapA]]'' operon mRNA between ''[[cggR]]'' and ''[[gapA]]'' (''[[cggR]]-[[gapA]]-[[pgk]]-[[tpi]]-[[pgm]]-[[eno]]'') {{PubMed|29794222,19193632}}
+* processing of the ATPase operon mRNA between ''[[atpI]]'' and ''[[atpB]]'' (''[[atpI]]-[[atpB]]-[[atpE]]-[[atpF]]-[[atpH]]-[[atpA]]-[[atpG]]-[[atpD]]-[[atpC]]''), requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ATPase operon mRNA between ''[[atpI]]'' and ''[[atpB]]'' (''[[atpI]]-[[atpB]]-[[atpE]]-[[atpF]]-[[atpH]]-[[atpA]]-[[atpG]]-[[atpD]]-[[atpC]]'') {{PubMed|29794222}}
+* processing of the ''[[dacA]]-[[pdxS]]-[[pdxT]]-[[serS]]'' mRNA upstream of ''[[dacA]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[dacA]]-[[pdxS]]-[[pdxT]]-[[serS]]'' mRNA upstream of ''[[dacA]]'' {{PubMed|29794222}}
+* processing of the ''[[ddl]]-[[murF]]'' mRNA upstream of ''[[ddl]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[ddl]]-[[murF]]'' mRNA upstream of ''[[ddl]]'' {{PubMed|29794222}}
+* processing of the ''[[yfjN]]'' leader mRNA, requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[yfjN]]'' leader mRNA {{PubMed|29794222}}
+* processing of the ''[[glnR]]-[[glnA]]'' operon mRNA between ''[[glnR]]'' and ''[[glnA]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
 * processing of the ''[[hbs]]'' leader mRNA {{PubMed|29794222}}
-* processing of the ''[[menA]]'' leader mRNA {{PubMed|29794222}}
+* processing of the ''[[menA]]'' leader mRNA, requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[metN]]-[[metP]]-[[metQ]]'' operon mRNA between ''[[metP]]'' and ''[[metQ]]'' {{PubMed|29794222}}
+* processing of the ''[[metN]]-[[metP]]-[[metQ]]'' operon mRNA between ''[[metP]]'' and ''[[metQ]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[ydiG]]-[[rex]]-[[tatAY]]-[[tatCY]]'' operon mRNA between ''[[rex]]'' and ''[[tatAY]]'' {{PubMed|29794222}}
+* processing of the ''[[ydiG]]-[[rex]]-[[tatAY]]-[[tatCY]]'' operon mRNA between ''[[rex]]'' and ''[[tatAY]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[rplGB]]-[[rpsL]]-[[rpsG]]-[[fusA]]-[[tufA]]'' operon mRNA between ''[[rplGB]]'' and ''[[rpsL]]'' {{PubMed|29794222}}
+* processing of the ''[[rplGB]]-[[rpsL]]-[[rpsG]]-[[fusA]]-[[tufA]]'' operon mRNA between ''[[rplGB]]'' and ''[[rpsL]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[rpoB]]-[[rpoC]]'' leader mRNA {{PubMed|29794222}}
+* processing of the ''[[rpoB]]-[[rpoC]]'' leader mRNA, requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[rpoE]]-[[pyrG]]'' operon mRNA between ''[[rpoE]]'' and ''[[pyrG]]'' {{PubMed|29794222}}
+* processing of the ''[[rpoE]]-[[pyrG]]'' operon mRNA between ''[[rpoE]]'' and ''[[pyrG]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[ruvA]]-[[ruvB]]-[[yrzS]]-[[queA]]-[[tgt]]-[[yrbF]]'' operon mRNA between ''[[tgt]]'' and ''[[yrbF]]'' {{PubMed|29794222}}
+* processing of the ''[[ruvA]]-[[ruvB]]-[[yrzS]]-[[queA]]-[[tgt]]-[[yrbF]]'' operon mRNA between ''[[tgt]]'' and ''[[yrbF]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[tagA]]-[[tagB]]'' mRNA upstream of ''[[tagA]]'' {{PubMed|29794222}}
+* processing of the ''[[tagA]]-[[tagB]]'' mRNA upstream of ''[[tagA]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[ybfG]]-[[ybfF]]-[[ybfE]]'' operon mRNA between ''[[ybfG]]'' and ''[[ybfF]]'' {{PubMed|29794222}}
+* processing of the ''[[ybfG]]-[[ybfF]]-[[ybfE]]'' operon mRNA between ''[[ybfG]]'' and ''[[ybfF]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[ylxM]]-[[ffh]]-[[rpsP]]-[[ylqC]]-[[ylqD]]-[[rimM]]-[[trmD]]-[[rplS]]'' operon mRNA between ''[[ffh]]'' and ''[[rpsP]]'' {{PubMed|29794222}}
+* processing of the ''[[ylxM]]-[[ffh]]-[[rpsP]]-[[ylqC]]-[[ylqD]]-[[rimM]]-[[trmD]]-[[rplS]]'' operon mRNA between ''[[ffh]]'' and ''[[rpsP]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* processing of the ''[[yonR]]-[[yonS]]'' operon mRNA between ''[[yonR]]'' and ''[[yonS]]'' {{PubMed|29794222}}
+* processing of the ''[[yonR]]-[[yonS]]'' operon mRNA between ''[[yonR]]'' and ''[[yonS]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
 * processing of the ''[[yqhL]]'' leader mRNA {{PubMed|29794222}}
-* processing of the ''[[ywzH]]-[[dltA]]-[[dltB]]-[[dltC]]-[[dltD]]-[[dltE]]'' operon mRNA between ''[[ywzH]]'' and ''[[dltA]]'' {{PubMed|29794222}}
+* processing of the ''[[ywzH]]-[[dltA]]-[[dltB]]-[[dltC]]-[[dltD]]-[[dltE]]'' operon mRNA between ''[[ywzH]]'' and ''[[dltA]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222}}
-* initiates the degradation of ''[[rpsO]]'' mRNA {{PubMed|20418391}}
+* initiates the degradation of ''[[rpsO]]'', requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex mRNA {{PubMed|20418391}}
-* ''[[infC]]-[[rpmI]]-[[rplT]]'' mRNA {{PubMed|21843271}}
+* ''[[infC]]-[[rpmI]]-[[rplT]]'' mRNA, requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|21843271}}
-* leader of the ''[[cwlO]]'' mRNA {{PubMed|29794222,24163346}}
+* leader of the ''[[cwlO]]'' mRNA, requires the [[protein|YmcA]]-[[protein|YlbF]]-[[protein|YaaT]] complex {{PubMed|29794222,24163346}}
 * the [[RoxS]] [[sRNA]] {{PubMed|25643072}}
 * the ''[[ppnKB]]'' mRNA {{PubMed|25643072}}
 === Increased RNA amount upon [[rny|RNase Y]] depletion ===
@@ Line 89: / Line 125: @@
 = Important publications on [[rny|RNase Y]] targets =
-<pubmed>22412379 23326572 21815947</pubmed>
+<pubmed>22412379 23326572 21815947 29794222</pubmed>
 =Back to [[regulons]]=

@@ Line 18: / Line 18: @@
 * processing of the ''[[menA]]'' leader mRNA {{PubMed|29794222}}
 * processing of the ''[[metN]]-[[metP]]-[[metQ]]'' operon mRNA between ''[[metP]]'' and ''[[metQ]]'' {{PubMed|29794222}}
-* processing of the ''[[moaC]]-[[rex]]-[[tatAY]]-[[tatCY]]'' operon mRNA between ''[[rex]]'' and ''[[tatAY]]'' {{PubMed|29794222}}
+* processing of the ''[[ydiG]]-[[rex]]-[[tatAY]]-[[tatCY]]'' operon mRNA between ''[[rex]]'' and ''[[tatAY]]'' {{PubMed|29794222}}
 * processing of the ''[[rplGB]]-[[rpsL]]-[[rpsG]]-[[fusA]]-[[tufA]]'' operon mRNA between ''[[rplGB]]'' and ''[[rpsL]]'' {{PubMed|29794222}}
 * processing of the ''[[rpoB]]-[[rpoC]]'' leader mRNA {{PubMed|29794222}}

@@ Line 9: / Line 9: @@
 * the [[S-box]] [[riboswitch]] RNAs ''in vivo'' and ''in vitro'' {{PubMed|19779461}}
-* processing of the ''[[gapA]]'' operon mRNA {{PubMed|19193632}}
+* processing of the ''[[gapA]]'' operon mRNA between ''[[cggR]]'' and ''[[gapA]]'' (''[[cggR]]-[[gapA]]-[[pgk]]-[[tpi]]-[[pgm]]-[[eno]]'') {{PubMed|29794222,19193632}}
 * initiates the degradation of ''[[rpsO]]'' mRNA {{PubMed|20418391}}
 * ''[[infC]]-[[rpmI]]-[[rplT]]'' mRNA {{PubMed|21843271}}
-* leader of the ''[[cwlO]]'' mRNA {{PubMed|24163346}}
+* leader of the ''[[cwlO]]'' mRNA {{PubMed|29794222,24163346}}
 * the [[RoxS]] [[sRNA]] {{PubMed|25643072}}
 * the ''[[ppnKB]]'' mRNA {{PubMed|25643072}}

@@ Line 13: / Line 13: @@
 * ''[[infC]]-[[rpmI]]-[[rplT]]'' mRNA {{PubMed|21843271}}
 * leader of the ''[[cwlO]]'' mRNA {{PubMed|24163346}}
 === Increased RNA amount upon [[rny|RNase Y]] depletion ===

@@ Line 12: / Line 12: @@
 * initiates the degradation of ''[[rpsO]]'' mRNA {{PubMed|20418391}}
 * ''[[infC]]-[[rpmI]]-[[rplT]]'' mRNA {{PubMed|21843271}}
 === Increased RNA amount upon [[rny|RNase Y]] depletion ===

@@ Line 67: / Line 67: @@
 = Important publications on [[rny|RNase Y]] targets =
   <big>''Lehnik-Habrink M, Schaffer M, Mäder U, Diethmaier C, Herzberg C, Stülke J''  </big>
   <big>'''RNA processing in ''Bacillus subtilis'': identification of targets of the essential RNase Y.''' </big>
   <big>Mol Microbiol. 2011 81(6): 1459-1473. </big>
   [http://www.ncbi.nlm.nih.gov/pubmed/21815947 PubMed:21815947]
 =Back to [[regulons]]=