Publication:
Multiple alignment of promoter sequences from the arabidopsis thaliana l. Genome

Файлы
W3123937907.pdf(2.52 MB)
Дата
2021
Авторы
Korotkov, E. V.
Suvorova, Y. M.
Kostenko, D. O.
Korotkova, M. A.
Journal Title
Journal ISSN
Volume Title
Издатель
Научные группы
Организационные подразделения
OrgUnit Logo
Организационная единица
Институт интеллектуальных кибернетических систем
Цель ИИКС и стратегия развития - это подготовка кадров, способных противостоять современным угрозам и вызовам, обладающих знаниями и компетенциями в области кибернетики, информационной и финансовой безопасности для решения задач разработки базового программного обеспечения, повышения защищенности критически важных информационных систем и противодействия отмыванию денег, полученных преступным путем, и финансированию терроризма.
Выпуск журнала
Аннотация
© 2021 by the authors. Licensee MDPI, Basel, Switzerland.In this study, we developed a new mathematical method for performing multiple alignment of highly divergent sequences (MAHDS), i.e., sequences that have on average more than 2.5 substitutions per position (x). We generated sets of artificial DNA sequences with x ranging from 0 to 4.4 and applied MAHDS as well as currently used multiple sequence alignment algorithms, including ClustalW, MAFFT, T-Coffee, Kalign, and Muscle to these sets. The results indicated that most of the existing methods could produce statistically significant alignments only for the sets with x < 2.5, whereas MAHDS could operate on sequences with x = 4.4. We also used MAHDS to analyze a set of promoter sequences from the Arabidopsis thaliana genome and discovered many conserved regions upstream of the transcription initiation site (from −499 to +1 bp); a part of the downstream region (from +1 to +70 bp) also significantly contributed to the obtained alignments. The possibilities of applying the newly developed method for the identification of promoter sequences in any genome are discussed. A server for multiple alignment of nucleotide sequences has been created.
Описание
Ключевые слова
Цитирование
Multiple alignment of promoter sequences from the arabidopsis thaliana l. Genome / Korotkov, E.V. [et al.] // Genes. - 2021. - 12. - № 2. - P. 1-21. - 10.3390/genes12020135
URI
https://www.doi.org/10.3390/genes12020135
 https://www.scopus.com/record/display.uri?eid=2-s2.0-85099649870&origin=resultslist
 http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=Alerting&SrcApp=Alerting&DestApp=WOS_CPL&DestLinkType=FullRecord&UT=WOS:000622566800001
 https://openrepository.mephi.ru/handle/123456789/23605
Коллекции
Публикации