Regulatory dynamics of gene expression in the developing male
gametophyte of Arabidopsis

J 2023

Regulatory dynamics of gene expression in the developing male gametophyte of Arabidopsis

KLODOVÁ, Božena, David POTĚŠIL, Lenka STEINBACHOVÁ, Christos MICHAILIDIS, Ann-Cathrin LINDNER et. al.

Basic information

Original name

Regulatory dynamics of gene expression in the developing male gametophyte of Arabidopsis

Authors

KLODOVÁ, Božena (203 Czech Republic), David POTĚŠIL (203 Czech Republic, belonging to the institution), Lenka STEINBACHOVÁ (203 Czech Republic), Christos MICHAILIDIS (203 Czech Republic), Ann-Cathrin LINDNER (620 Portugal), Dieter HACKENBERG (276 Germany), Jorg BECKER (620 Portugal), Zbyněk ZDRÁHAL (203 Czech Republic, guarantor, belonging to the institution), David TWELL (826 United Kingdom of Great Britain and Northern Ireland) and David HONYS (203 Czech Republic)

Edition

PLANT REPRODUCTION, GERMANY, SPRINGER, 2023, 2194-7953

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10611 Plant sciences, botany

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

fulltext

Impact factor

Impact factor: 3.400 in 2022

RIV identification code

RIV/00216224:14740/23:00130612

Organization unit

Central European Institute of Technology

DOI

http://dx.doi.org/10.1007/s00497-022-00452-5

UT WoS

000871865600001

Keywords in English

Arabidopsis; Male gametophyte; RNA-seq; Proteome; Microgametogenesis

Abstract

V originále

Sexual reproduction in angiosperms requires the production and delivery of two male gametes by a three-celled haploid male gametophyte. This demands synchronized gene expression in a short developmental window to ensure double fertilization and seed set. While transcriptomic changes in developing pollen are known for Arabidopsis, no studies have integrated RNA and proteomic data in this model. Further, the role of alternative splicing has not been fully addressed, yet post-transcriptional and post-translational regulation may have a key role in gene expression dynamics during microgametogenesis. We have refined and substantially updated global transcriptomic and proteomic changes in developing pollen for two Arabidopsis accessions. Despite the superiority of RNA-seq over microarray-based platforms, we demonstrate high reproducibility and comparability. We identify thousands of long non-coding RNAs as potential regulators of pollen development, hundreds of changes in alternative splicing and provide insight into mRNA translation rate and storage in developing pollen. Our analysis delivers an integrated perspective of gene expression dynamics in developing Arabidopsis pollen and a foundation for studying the role of alternative splicing in this model.

Links

EF16_019/0000738, research and development project

Name: Centrum experimentální biologie rostlin

EF16_026/0008446, research and development project

Name: Integrace signálu a epigenetické reprogramování pro produktivitu rostlin

LM2018127, research and development project

Name: Česká infrastruktura pro integrativní strukturní biologii (Acronym: CIISB)

Investor: Ministry of Education, Youth and Sports of the CR

LM2018140, research and development project

Name: e-Infrastruktura CZ (Acronym: e-INFRA CZ)

Investor: Ministry of Education, Youth and Sports of the CR

90127, large research infrastructures

Name: CIISB II

Citovat

KLODOVÁ, Božena, David POTĚŠIL, Lenka STEINBACHOVÁ, Christos MICHAILIDIS, Ann-Cathrin LINDNER, Dieter HACKENBERG, Jorg BECKER, Zbyněk ZDRÁHAL, David TWELL and David HONYS. Regulatory dynamics of gene expression in the developing male gametophyte of Arabidopsis. PLANT REPRODUCTION. GERMANY: SPRINGER, 2023, vol. 36, No 3, p. 213-241. ISSN 2194-7953. Available from: https://dx.doi.org/10.1007/s00497-022-00452-5.

@article{2276201,
   author = {Klodová, Božena and Potěšil, David and Steinbachová, Lenka and Michailidis, Christos and Lindner, AnnandCathrin and Hackenberg, Dieter and Becker, Jorg and Zdráhal, Zbyněk and Twell, David and Honys, David},
   article_location = {GERMANY},
   article_number = {3},
   doi = {http://dx.doi.org/10.1007/s00497-022-00452-5},
   keywords = {Arabidopsis; Male gametophyte; RNA-seq; Proteome; Microgametogenesis},
   language = {eng},
   issn = {2194-7953},
   journal = {PLANT REPRODUCTION},
   title = {Regulatory dynamics of gene expression in the developing male gametophyte of Arabidopsis},
   url = {https://link.springer.com/article/10.1007/s00497-022-00452-5},
   volume = {36},
   year = {2023}
}

TY  - JOUR
ID  - 2276201
AU  - Klodová, Božena - Potěšil, David - Steinbachová, Lenka - Michailidis, Christos - Lindner, Ann-Cathrin - Hackenberg, Dieter - Becker, Jorg - Zdráhal, Zbyněk - Twell, David - Honys, David
PY  - 2023
TI  - Regulatory dynamics of gene expression in the developing male gametophyte of Arabidopsis
JF  - PLANT REPRODUCTION
VL  - 36
IS  - 3
SP  - 213-241
EP  - 213-241
PB  - SPRINGER
SN  - 21947953
KW  - Arabidopsis
KW  - Male gametophyte
KW  - RNA-seq
KW  - Proteome
KW  - Microgametogenesis
UR  - https://link.springer.com/article/10.1007/s00497-022-00452-5
N2  - Sexual reproduction in angiosperms requires the production and delivery of two male gametes by a three-celled haploid male gametophyte. This demands synchronized gene expression in a short developmental window to ensure double fertilization and seed set. While transcriptomic changes in developing pollen are known for Arabidopsis, no studies have integrated RNA and proteomic data in this model. Further, the role of alternative splicing has not been fully addressed, yet post-transcriptional and post-translational regulation may have a key role in gene expression dynamics during microgametogenesis. We have refined and substantially updated global transcriptomic and proteomic changes in developing pollen for two Arabidopsis accessions. Despite the superiority of RNA-seq over microarray-based platforms, we demonstrate high reproducibility and comparability. We identify thousands of long non-coding RNAs as potential regulators of pollen development, hundreds of changes in alternative splicing and provide insight into mRNA translation rate and storage in developing pollen. Our analysis delivers an integrated perspective of gene expression dynamics in developing Arabidopsis pollen and a foundation for studying the role of alternative splicing in this model.
ER  -

KLODOVÁ, Božena, David POTĚŠIL, Lenka STEINBACHOVÁ, Christos MICHAILIDIS, Ann-Cathrin LINDNER, Dieter HACKENBERG, Jorg BECKER, Zbyněk ZDRÁHAL, David TWELL and David HONYS. Regulatory dynamics of gene expression in the developing male gametophyte of Arabidopsis. \textit{PLANT REPRODUCTION}. GERMANY: SPRINGER, 2023, vol.~36, No~3, p.~213-241. ISSN~2194-7953. Available from: https://dx.doi.org/10.1007/s00497-022-00452-5.

Detailed Information on Publication Record