Botanica Pacifica. A journal of plant science and conservation Preprint
Article first published online: 26 SEP 2015 | DOI: 10.17581/bp.2015.04207
Stomatal Movement and Stomatal Formation Mechanisms Utilize the Same Regulatory Genes
Dina Mukha 1, 3, Boris Ostretsov 1, Dzmitry Mukha 1, 2 & Leonid Brodsky 1, 2
1 Tauber Bioinformatics Research Center, University of Haifa, Israel
2 Department of Evolutionary and Environmental Biology, Faculty of Life Science, University of Haifa, Israel
3 Pine Biotech Inc, Biloxi, MS, USA
The climate changes across geological time are mirrored in paleontological fossils of stomata morphology. Professor Krassilov significantly contributed to a study of stomata development in modern plants. As a continuation of his work we approached the stomata regulation problem in modern plants by mining of the publically available transcriptome data on regulation of the stomata movement and formation by three of key regulators: SOC1, SPEECHLESS, and YODA. A goal of the study was to integrate heterogeneous data collections on stomata regulation and disclose the underlying basic regulation pathways that belong to stomata as the specific cell type independently on perturbations of its regulatory pathways. By a fresh algorithmic approach, we managed to extract the underlying stomata regulation genes from divergently designed stomata projects. In particular, we defined groups of genes associated with the stomata patterning, formation, and movement. Additionally, groups of genes were associated with specific pairs of these processes.
Муха Д., Острецов Б., Муха Дм., Бродский Л. Механизмы образования и функционирования устьичного аппарата используют одни и те же регуляторные гены. Изменения климата в геологическом времени находят отражение в морфологии устьиц палеонтологических окаменелостей. Профессор В.А. Красилов внес значительный вклад в изучение формирования устьиц современных растений. В развитие его идей мы подошли к проблеме регуляции работы устьичного аппарата современных растений, проанализировав массив имеющихся данных по транскрибированию функционирования и образования устьичного аппарата тремя ключевыми регуляторами: SOC1, SPEECHLESS и YODA. Цель исследования – интегрировать разнородные данные по регулированию работы устьиц и раскрыть основные пути контроля устьиц, не зависящие от специфических особенностей регуляторных механизмов. С использованием нового алгоритмического подхода нам удалось определить основные регуляторные гены, ассоциированные с устьичным аппаратом, используя разнородные экспериментальные данные. В частности, мы определили группы генов, ассоциированных с расположением, формированием и функционированием устьиц. Кроме того, нами определены группы генов, вовлеченные в несколько регуляторных процессов одновременно.
Keywords: stomata, transcription factors, kinases, gene expression, RNA-Seq, устьица, транскрипционные факторы, киназы, экспрессия генов
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