TY  - CONF
AU  - Božić, Manja
AU  - Ignjatović-Micić, Dragana
AU  - Delić, Nenad
AU  - Mladenović, Marko
AU  - Vančetović, Jelena
AU  - Banović Đeri, Bojana
AU  - Nikolić, Ana
PY  - 2023
UR  - https://belbi.bg.ac.rs/
UR  - https://imagine.imgge.bg.ac.rs/handle/123456789/2007
AB  - Micro RNAs (miRNAs) are known regulators of various processes in plants, including growth,
development and stress responses. They achieve this through mRNA cleavage or translational
inhibition, in a process called RNA interference. Herein, their role in chilling stress response in
young maize seedlings (Zea mays L.) is examined, using high-throughput sequencing methods.
Bringing light to all aspects of chilling stress response in maize is necessary since earlier
sowing, during colder periods, is one of the most promising strategies of avoiding maize yield
loss due to effects of climate change in these areas.
Sterilized seeds of two maize genotypes (tolerant - T and sensitive - S to low temperatures)
were germinated in the dark for five days (optimal conditions), after which the 5-d old seedlings
were exposed to chilling conditions for 6h (10° C). Samples for RNA isolation and cDNA library
preparation were taken after the treatment ended, and single-end 50 bp sequencing was
performed (Illumina® Novaseq 6000). The miRNAs were then filtered, mapped, identified
and quantified using adequate bioinformatics tools; and the differential expression analysis
was carried out using the DEGseq R package. The analysis was performed on 859 miRNAs,
after previously executed TPM normalization using the MA-plot-based method with random
sampling model (MARS). The threshold for significantly differential expression was set as the
Bayesian adjusted p-value, or q-value < 0.01 and log2 fold change > 1.
A total of 612 were expressed differentially, but only 55 miRNAs were common for both
genotypes and at the same time differentially expressed between control and treatment
conditions – 40 novel and 15 known. Half of the common miRNAs showed the same
expression patterns in both genotypes, while the other half did not. Among them, seven known
miRNAs showed opposing expression patterns between the genotypes (zma-miR167b-3p
zma-miR167e-3p, zma-miR159c-5p, zma-miR164g-3p, zma-miR166a-5p, zma-miR398a-
3p, and zma-miR528a-3p). These miRNAs were shown to have a role in various abiotic stress
responses, including drought, waterlogging, high salts – but not chilling. While the results point
to their potential role in establishing chilling tolerance in maize seedlings, further research is
necessary to confirm it and connect the miRNAs to their potential targets.
PB  - Belgrade : Institute of molecular genetics and genetic engineering
C3  - 4th Belgrade Bioinformatics Conference
T1  - Seven miRNAs potentially included in the chilling response of maize plants in early stages of development
EP  - 83
SP  - 83
VL  - 4
UR  - https://hdl.handle.net/21.15107/rcub_imagine_2007
ER  - 

@conference{
author = "Božić, Manja and Ignjatović-Micić, Dragana and Delić, Nenad and Mladenović, Marko and Vančetović, Jelena and Banović Đeri, Bojana and Nikolić, Ana",
year = "2023",
abstract = "Micro RNAs (miRNAs) are known regulators of various processes in plants, including growth,
development and stress responses. They achieve this through mRNA cleavage or translational
inhibition, in a process called RNA interference. Herein, their role in chilling stress response in
young maize seedlings (Zea mays L.) is examined, using high-throughput sequencing methods.
Bringing light to all aspects of chilling stress response in maize is necessary since earlier
sowing, during colder periods, is one of the most promising strategies of avoiding maize yield
loss due to effects of climate change in these areas.
Sterilized seeds of two maize genotypes (tolerant - T and sensitive - S to low temperatures)
were germinated in the dark for five days (optimal conditions), after which the 5-d old seedlings
were exposed to chilling conditions for 6h (10° C). Samples for RNA isolation and cDNA library
preparation were taken after the treatment ended, and single-end 50 bp sequencing was
performed (Illumina® Novaseq 6000). The miRNAs were then filtered, mapped, identified
and quantified using adequate bioinformatics tools; and the differential expression analysis
was carried out using the DEGseq R package. The analysis was performed on 859 miRNAs,
after previously executed TPM normalization using the MA-plot-based method with random
sampling model (MARS). The threshold for significantly differential expression was set as the
Bayesian adjusted p-value, or q-value < 0.01 and log2 fold change > 1.
A total of 612 were expressed differentially, but only 55 miRNAs were common for both
genotypes and at the same time differentially expressed between control and treatment
conditions – 40 novel and 15 known. Half of the common miRNAs showed the same
expression patterns in both genotypes, while the other half did not. Among them, seven known
miRNAs showed opposing expression patterns between the genotypes (zma-miR167b-3p
zma-miR167e-3p, zma-miR159c-5p, zma-miR164g-3p, zma-miR166a-5p, zma-miR398a-
3p, and zma-miR528a-3p). These miRNAs were shown to have a role in various abiotic stress
responses, including drought, waterlogging, high salts – but not chilling. While the results point
to their potential role in establishing chilling tolerance in maize seedlings, further research is
necessary to confirm it and connect the miRNAs to their potential targets.",
publisher = "Belgrade : Institute of molecular genetics and genetic engineering",
journal = "4th Belgrade Bioinformatics Conference",
title = "Seven miRNAs potentially included in the chilling response of maize plants in early stages of development",
pages = "83-83",
volume = "4",
url = "https://hdl.handle.net/21.15107/rcub_imagine_2007"
}

Božić, M., Ignjatović-Micić, D., Delić, N., Mladenović, M., Vančetović, J., Banović Đeri, B.,& Nikolić, A.. (2023). Seven miRNAs potentially included in the chilling response of maize plants in early stages of development. in 4th Belgrade Bioinformatics Conference
Belgrade : Institute of molecular genetics and genetic engineering., 4, 83-83.
https://hdl.handle.net/21.15107/rcub_imagine_2007

Božić M, Ignjatović-Micić D, Delić N, Mladenović M, Vančetović J, Banović Đeri B, Nikolić A. Seven miRNAs potentially included in the chilling response of maize plants in early stages of development. in 4th Belgrade Bioinformatics Conference. 2023;4:83-83.
https://hdl.handle.net/21.15107/rcub_imagine_2007 .

Božić, Manja, Ignjatović-Micić, Dragana, Delić, Nenad, Mladenović, Marko, Vančetović, Jelena, Banović Đeri, Bojana, Nikolić, Ana, "Seven miRNAs potentially included in the chilling response of maize plants in early stages of development" in 4th Belgrade Bioinformatics Conference, 4 (2023):83-83,
https://hdl.handle.net/21.15107/rcub_imagine_2007 .