We are working for developing markers in characterizing bolting time variations of cabbage lines, like early and late bolting time. We have tried to get PCR based polymorphism between them, in this regards we have considered FLC and other flowering pathway genes. However, we only found ploymorphism for one orthlogs in FLC and the polymorphism due to sequence variation within the intron confirmed through alignment of cloned sequence with the reference FLC. It indicates that the variation persist between the lines due to noncoding RNA. The CDS sequences are almost conserved for all FLC orthologs. We checked the relative expression of this genes by using those contrasting lines exposed to vernalization in different time courses (0-11 weeks) and we have found differential expression pattern. I would like to know, is the position of the noncoding RNA, like within the functional domian or upstream or downstream of the domain, has any remarkable role in the gene expression?
Please read up on the regulation by long noncoding RNAs, COOLAIR and COLDAIR.
Looks like there is quite a bit of literature on the subject.
https://www.ncbi.nlm.nih.gov/pubmed/?term=FLC%2C+RNA%2C+brassica
Hi Ujjal Kumar Nath
Kindly follow links below for some suggestions.....
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5663108/
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4563214/
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4049567/
Best Luck.,,
MH
this link is useful
https://www.ncbi.nlm.nih.gov/pubmed/?term=FLC%2C+RNA%2C+brassica
regards
Thanks all of you for providing lot of literatures that will help me.
Dear Ujjal...
"Vernalization is the best-studied regulatory process in plants that is known to involve lncRNAs, primarily in the regulation of FLOWERING LOCUS C (FLC) gene.
FLC is a key regulator of flowering time in A. thaliana, which acts as a repressor to inhibit flowering under cold temperature . FLC gene is located at a complex locus. Recent studies have shown that at least two types of lncRNAs are present in this locus. A group of long antisense RNAs, called COLD INDUCED LONG ANTISENSE INTRAGENIC RNAs (COOLAIR) are transcribed in antisense orientation in relation to FLC[23], whereas another lncRNA COLD ASSISTED INTRONICNONCODING RNA (COLDAIR), is transcribed from the intron of FLC gene in the sense orientation. Both lncRNAs can help recruit PHD-PRC2 complex to enable histone modifications of FLC via epigenetic regulation".
Reference:
Article Long Non-coding RNAs and Their Biological Roles in Plants
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