Limits...
Exploring miRNAs involved in blue/UV-A light response in Brassica rapa reveals special regulatory mode during seedling development.

Zhou B, Fan P, Li Y, Yan H, Xu Q - BMC Plant Biol. (2016)

Bottom Line: Seventeen conserved and 226 novel miRNAs differed at least 2-fold in response to blue and UV-A light compared with levels after a dark treatment.Real time PCR showed that BrmiR159, BrmiRC0191, BrmiRC0460, BrmiRC0323, BrmiRC0418, BrmiRC0005 were blue light-induced and northern blot revealed that the transcription level of BrmiR167 did not differ significantly among seedlings treated with dark, blue or UV-light.A set of miRNAs and their targets involved in the regulation of the light-induced photomorphogenic phenotype in seedlings of Brassica rapa was identified, providing new insights into blue and UV-A light-responsive miRNAs in seedlings of Tsuda and evidence of multiple targets for the miRNAs and their diverse roles in plant development.

View Article: PubMed Central - PubMed

Affiliation: College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China. bozhou2003@163.com.

ABSTRACT

Background: Growth, development, and pigment synthesis in Brassica rapa subsp. rapa cv. Tsuda, a popular vegetable crop, are influenced by light. Although microRNAs (miRNAs) have vital roles in the metabolic processes and abiotic stress responses of plants, whether miRNAs play a role in anthocyanin biosynthesis and development of Tsuda seedlings exposed to light is unknown.

Results: Seventeen conserved and 226 novel miRNAs differed at least 2-fold in response to blue and UV-A light compared with levels after a dark treatment. Real time PCR showed that BrmiR159, BrmiRC0191, BrmiRC0460, BrmiRC0323, BrmiRC0418, BrmiRC0005 were blue light-induced and northern blot revealed that the transcription level of BrmiR167 did not differ significantly among seedlings treated with dark, blue or UV-light. BrmiR156 and BrmiR157 were present in the greatest amount (number of reads) and among their 8 putative targets in the SPL gene family, only SPL9 (Bra004674) and SPL15 (Bra003305) increased in expression after blue or UV-A exposure. In addition, miR157-guided cleavage of target SPL9 mRNAs (Bra004674, Bra016891) and SPL15 mRNAs (Bra003305, Bra014599) took place 10 or 11 bases from the 5' ends of the binding region in the miR157 sequence.

Conclusions: A set of miRNAs and their targets involved in the regulation of the light-induced photomorphogenic phenotype in seedlings of Brassica rapa was identified, providing new insights into blue and UV-A light-responsive miRNAs in seedlings of Tsuda and evidence of multiple targets for the miRNAs and their diverse roles in plant development.

No MeSH data available.


Related in: MedlinePlus

Differential expression of miRNAs in Tsuda seedings after dark, blue light or UV-A treatment. Red dots denote the ratio of log 2(ytreatment/xcontrol) ≥ 1; blue dots denote the ratio of log 2 (ytreatment/xcontrol) ≤ −1
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
getmorefigures.php?uid=PMC4862165&req=5

Fig2: Differential expression of miRNAs in Tsuda seedings after dark, blue light or UV-A treatment. Red dots denote the ratio of log 2(ytreatment/xcontrol) ≥ 1; blue dots denote the ratio of log 2 (ytreatment/xcontrol) ≤ −1

Mentions: Based on the results of high-throughput sequencing, miR5175 and miR3630 were only detected in the UV-A sRNA library, miR5300 was only found in the blue sRNA library, and miR1535 and miR5138 were identified only in the dark sRNA library. By normalizing the number of miRNA reads (on the basis of transcripts per million, TPM) in the library, the relative abundance of miR391, miR1439, miR2111, miR2911, miR2916, miR5083 in the UV-A sRNA library was 2 times higher than in the dark sRNA library, whereas the abundance of miR396 and miR1885 was the opposite. In the blue-light-responsive sRNA library, aside from miR391, miR2111 and miR5083, miR1511 was more abundant than in the dark sRNA library, whereas miR5072 and miR5139 were less abundant. However, the transcription level of most miRNAs did not obviously differ in the seedlings among the dark, blue light and UV-A light treatments (Additional file 4: Table S3). Among the novel miRNAs, 23 candidate miRNAs were downregulated, and 7 were upregulated more than 2-fold after UV-A treatment. In particular, BrmiRC0305 and BrmiRC0491 were upregulated more than 4-fold after UV-A. Moreover, 9 candidate miRNAs were downregulated, and 10 candidate miRNAs were upregulated more than 2-fold after blue light. There were also 110 candidate miRNAs specific to the UV-A-light-induced library, 67 candidate miRNAs specific to blue-light-induced library and 226 specific to the dark-treatment library (Fig. 2).Fig. 2


Exploring miRNAs involved in blue/UV-A light response in Brassica rapa reveals special regulatory mode during seedling development.

Zhou B, Fan P, Li Y, Yan H, Xu Q - BMC Plant Biol. (2016)

Differential expression of miRNAs in Tsuda seedings after dark, blue light or UV-A treatment. Red dots denote the ratio of log 2(ytreatment/xcontrol) ≥ 1; blue dots denote the ratio of log 2 (ytreatment/xcontrol) ≤ −1
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4862165&req=5

Fig2: Differential expression of miRNAs in Tsuda seedings after dark, blue light or UV-A treatment. Red dots denote the ratio of log 2(ytreatment/xcontrol) ≥ 1; blue dots denote the ratio of log 2 (ytreatment/xcontrol) ≤ −1
Mentions: Based on the results of high-throughput sequencing, miR5175 and miR3630 were only detected in the UV-A sRNA library, miR5300 was only found in the blue sRNA library, and miR1535 and miR5138 were identified only in the dark sRNA library. By normalizing the number of miRNA reads (on the basis of transcripts per million, TPM) in the library, the relative abundance of miR391, miR1439, miR2111, miR2911, miR2916, miR5083 in the UV-A sRNA library was 2 times higher than in the dark sRNA library, whereas the abundance of miR396 and miR1885 was the opposite. In the blue-light-responsive sRNA library, aside from miR391, miR2111 and miR5083, miR1511 was more abundant than in the dark sRNA library, whereas miR5072 and miR5139 were less abundant. However, the transcription level of most miRNAs did not obviously differ in the seedlings among the dark, blue light and UV-A light treatments (Additional file 4: Table S3). Among the novel miRNAs, 23 candidate miRNAs were downregulated, and 7 were upregulated more than 2-fold after UV-A treatment. In particular, BrmiRC0305 and BrmiRC0491 were upregulated more than 4-fold after UV-A. Moreover, 9 candidate miRNAs were downregulated, and 10 candidate miRNAs were upregulated more than 2-fold after blue light. There were also 110 candidate miRNAs specific to the UV-A-light-induced library, 67 candidate miRNAs specific to blue-light-induced library and 226 specific to the dark-treatment library (Fig. 2).Fig. 2

Bottom Line: Seventeen conserved and 226 novel miRNAs differed at least 2-fold in response to blue and UV-A light compared with levels after a dark treatment.Real time PCR showed that BrmiR159, BrmiRC0191, BrmiRC0460, BrmiRC0323, BrmiRC0418, BrmiRC0005 were blue light-induced and northern blot revealed that the transcription level of BrmiR167 did not differ significantly among seedlings treated with dark, blue or UV-light.A set of miRNAs and their targets involved in the regulation of the light-induced photomorphogenic phenotype in seedlings of Brassica rapa was identified, providing new insights into blue and UV-A light-responsive miRNAs in seedlings of Tsuda and evidence of multiple targets for the miRNAs and their diverse roles in plant development.

View Article: PubMed Central - PubMed

Affiliation: College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin, 150040, China. bozhou2003@163.com.

ABSTRACT

Background: Growth, development, and pigment synthesis in Brassica rapa subsp. rapa cv. Tsuda, a popular vegetable crop, are influenced by light. Although microRNAs (miRNAs) have vital roles in the metabolic processes and abiotic stress responses of plants, whether miRNAs play a role in anthocyanin biosynthesis and development of Tsuda seedlings exposed to light is unknown.

Results: Seventeen conserved and 226 novel miRNAs differed at least 2-fold in response to blue and UV-A light compared with levels after a dark treatment. Real time PCR showed that BrmiR159, BrmiRC0191, BrmiRC0460, BrmiRC0323, BrmiRC0418, BrmiRC0005 were blue light-induced and northern blot revealed that the transcription level of BrmiR167 did not differ significantly among seedlings treated with dark, blue or UV-light. BrmiR156 and BrmiR157 were present in the greatest amount (number of reads) and among their 8 putative targets in the SPL gene family, only SPL9 (Bra004674) and SPL15 (Bra003305) increased in expression after blue or UV-A exposure. In addition, miR157-guided cleavage of target SPL9 mRNAs (Bra004674, Bra016891) and SPL15 mRNAs (Bra003305, Bra014599) took place 10 or 11 bases from the 5' ends of the binding region in the miR157 sequence.

Conclusions: A set of miRNAs and their targets involved in the regulation of the light-induced photomorphogenic phenotype in seedlings of Brassica rapa was identified, providing new insights into blue and UV-A light-responsive miRNAs in seedlings of Tsuda and evidence of multiple targets for the miRNAs and their diverse roles in plant development.

No MeSH data available.


Related in: MedlinePlus