From Gametophytes to Sporophytes: Investigating Plant Motif
Distribution with GOLEM

a 2025

From Gametophytes to Sporophytes: Investigating Plant Motif Distribution with GOLEM

NEVOSÁD, Lukáš; Božena KLODOVÁ; Jiří RUDOLF; Tomáš RAČEK; Tereza PŘEROVSKÁ et al.

Základní údaje

Originální název

From Gametophytes to Sporophytes: Investigating Plant Motif Distribution with GOLEM

Autoři

NEVOSÁD, Lukáš; Božena KLODOVÁ; Jiří RUDOLF ; Tomáš RAČEK; Tereza PŘEROVSKÁ; Alžbeta KUSOVÁ; Radka SVOBODOVÁ; David HONYS a Petra PROCHÁZKOVÁ SCHRUMPFOVÁ

Vydání

Climate-Proof Crop Reproduction: from lab to farm, 2nd RECROP Annual Meeting, Thessaloniki, 2025

Další údaje

Jazyk

angličtina

Typ výsledku

Konferenční abstrakt

Obor

10611 Plant sciences, botany

Stát vydavatele

Řecko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL, URL

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14740/25:00143985

Organizační jednotka

Středoevropský technologický institut

Klíčová slova anglicky

Cis-regulatory elements (CREs); Plant promoter analysis; GOLEM web tool; Male gametophyte development; Regulatory motif distribution

Štítky

rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 16. 3. 2026 13:17, Mgr. Eva Dubská

Anotace

V originále

GOLEM (Gene regulatOry eLEMents, https://golem.ncbr.muni.cz) is a user-friendly tool for visualizing gene regulatory motifs in plant promoters, specially of the genes showing higher expression in male reproductive tissues or leaves, across the selected plant genomes within the plant evolution (streptophyte algae, mosses, ferns, basal angiosperm, monocots and dicots). We demonstrate GOLEM’s utility with motifs associated with male gametophyte development (e.g., LAT52, MEF2, and DOF_core), hormone-responsive elements (e.g., GCC-box, ARR10_core), and conserved motifs (e.g., TATA-box, ABRE, TC-element, I-box, and DRE/CRT element). Promoter analysis using GOLEM revealed that TATA-box-containing promoters are linked to genes expressed during late pollen development but not early pollen development in dicot plants. It was also shown that the LAT52 motif, motif associated with late pollen development, is preferentially located in the 5′ UTR. Moreover, GOLEM demonstrated that the ethylene-responsive element (GCC-box) exhibits a conserved pattern downstream of ATG throughout evolution, even in streptophyte algae. In contrast, the ARR10-binding motif (ARR10_core), associated with cytokinin response, does not show a conserved distribution across evolution, starting from streptophyte algae. This aligns with the fact that components of both signaling cascades are present in land plants, however, the streptophyte algae lacks some components of cytokinin signaling pathway. Additionally, a new Omics Repository focused on plants, which is being developed to support the storage, acquisition, and analysis of omics data also in crop plants, will be discussed.

Návaznosti

EH22_008/0004581, projekt VaV

Název: Nové poznatky pro plodiny nové generace

Přiložené soubory

Robert_Boisivon_RECROP_Recko_abstract_book.pdf

Citovat

NEVOSÁD, Lukáš; Božena KLODOVÁ; Jiří RUDOLF; Tomáš RAČEK; Tereza PŘEROVSKÁ; Alžbeta KUSOVÁ; Radka SVOBODOVÁ; David HONYS a Petra PROCHÁZKOVÁ SCHRUMPFOVÁ. From Gametophytes to Sporophytes: Investigating Plant Motif Distribution with GOLEM. In Climate-Proof Crop Reproduction: from lab to farm, 2nd RECROP Annual Meeting, Thessaloniki. 2025.

@proceedings{2560957,
   author = {Nevosád, Lukáš and Klodová, Božena and Rudolf, Jiří and Raček, Tomáš and Přerovská, Tereza and Kusová, Alžbeta and Svobodová, Radka and Honys, David and Procházková Schrumpfová, Petra},
   booktitle = {Climate-Proof Crop Reproduction: from lab to farm, 2nd RECROP Annual Meeting, Thessaloniki},
   keywords = {Cis-regulatory elements (CREs); Plant promoter analysis; GOLEM web tool; Male gametophyte development; Regulatory motif distribution},
   language = {eng},
   title = {From Gametophytes to Sporophytes: Investigating Plant Motif Distribution with GOLEM},
   url = {https://www.recrop-cost.com/},
   year = {2025}
}

TY  - CONF
ID  - 2560957
AU  - Nevosád, Lukáš - Klodová, Božena - Rudolf, Jiří - Raček, Tomáš - Přerovská, Tereza - Kusová, Alžbeta - Svobodová, Radka - Honys, David - Procházková Schrumpfová, Petra
PY  - 2025
TI  - From Gametophytes to Sporophytes: Investigating Plant Motif Distribution with GOLEM
KW  - Cis-regulatory elements (CREs)
KW  - Plant promoter analysis
KW  - GOLEM web tool
KW  - Male gametophyte development
KW  - Regulatory motif distribution
UR  - https://www.recrop-cost.com/
N2  - GOLEM (Gene regulatOry eLEMents, https://golem.ncbr.muni.cz) is a user-friendly tool for visualizing gene regulatory motifs in plant promoters, specially of the genes showing higher expression in male reproductive tissues or leaves, across the selected plant genomes within the plant evolution (streptophyte algae, mosses, ferns, basal angiosperm, monocots and dicots). We demonstrate GOLEM’s utility with motifs associated with male gametophyte development (e.g., LAT52, MEF2, and DOF_core), hormone-responsive elements (e.g., GCC-box, ARR10_core), and conserved motifs (e.g., TATA-box, ABRE, TC-element, I-box, and DRE/CRT element). Promoter analysis using GOLEM revealed that TATA-box-containing promoters are linked to genes expressed during late pollen development but not early pollen development in dicot plants. It was also shown that the LAT52 motif, motif associated with late pollen development, is preferentially located in the 5′ UTR. Moreover, GOLEM demonstrated that the ethylene-responsive element (GCC-box) exhibits a conserved pattern downstream of ATG throughout evolution, even in streptophyte algae. In contrast, the ARR10-binding motif (ARR10_core), associated with cytokinin response, does not show a conserved distribution across evolution, starting from streptophyte algae. This aligns with the fact that components of both signaling cascades are present in land plants, however, the streptophyte algae lacks some components of cytokinin signaling pathway. Additionally, a new Omics Repository focused on plants, which is being developed to support the storage, acquisition, and analysis of omics data also in crop plants, will be discussed.
ER  -

NEVOSÁD, Lukáš; Božena KLODOVÁ; Jiří RUDOLF; Tomáš RAČEK; Tereza PŘEROVSKÁ; Alžbeta KUSOVÁ; Radka SVOBODOVÁ; David HONYS a Petra PROCHÁZKOVÁ SCHRUMPFOVÁ. From Gametophytes to Sporophytes: Investigating Plant Motif Distribution with GOLEM. In \textit{Climate-Proof Crop Reproduction: from lab to farm, 2nd RECROP Annual Meeting, Thessaloniki}. 2025.

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