Faculty Opinions recommendation of Evolution and divergence of the MADS-box gene family based on genome-wide expression analyses.

2004 ◽  
Author(s):  
Guenter Theissen
Keyword(s):  
Gene Family ◽  
Mads Box ◽  
Genome Wide ◽  
Mads Box Gene ◽  
Family Based ◽  
Genome Wide Expression

Genome-wide identification and analysis of the MADS-box gene family and its potential role in fruit ripening in black raspberry (Rubus occidentalis L.)

2021 ◽  
pp. 1-15
Author(s):  
Yaqiong Wu ◽  
Chunhong Zhang ◽  
Wenlong Wu ◽  
Weilin Li ◽  
Lianfei Lyu
Keyword(s):  
Gene Family ◽  
Fruit Ripening ◽  
Fruit Development ◽  
Expression Patterns ◽  
Type I ◽  
Black Raspberry ◽  
Mads Box ◽  
Mads Box Genes ◽  
Genome Wide ◽  
Mads Box Gene

BACKGROUND: Black raspberry is a vital fruit crop with a high antioxidant function. MADS-box genes play an important role in the regulation of fruit development in angiosperms. OBJECTIVE: To understand the regulatory role of the MADS-box family, a total of 80 MADS-box genes were identified and analyzed. METHODS: The MADS-box genes in the black raspberry genome were analyzed using bioinformatics methods. Through an analysis of the promoter elements, the possible functions of different members of the family were predicted. The spatiotemporal expression patterns of members of the MADS-box family during black raspberry fruit development and ripening were systematically analyzed. RESULTS: The genes were classified into type I (Mα: 33; Mβ: 6; Mγ: 10) and type II (MIKC *: 2; MIKCC: 29) genes. We also obtained a complete overview of the RoMADS-box gene family through phylogenetic, gene structure, conserved motif, and cis element analyses. The relative expression analysis showed different expression patterns, and most RoMADS-box genes were more highly expressed in fruit than in other tissues of black raspberry. CONCLUSIONS: This finding indicates that the MADS-box gene family is involved in the regulation of fruit ripening processes in black raspberry.

Genome-wide survey and expression analysis of the MADS-box gene family in soybean

2013 ◽  
Vol 40 (6) ◽  
pp. 3901-3911 ◽  
Author(s):  
Yongjun Shu ◽  
Diansi Yu ◽  
Dan Wang ◽  
Donglin Guo ◽  
Changhong Guo
Keyword(s):  
Gene Family ◽  
Expression Analysis ◽  
Mads Box ◽  
Genome Wide ◽  
Mads Box Gene ◽  
Genome Wide Survey

Genome-Wide Identification, Classification, Expression Profiling, and SSR Marker Development of the MADS-Box Gene Family in Citrus

2013 ◽  
Vol 32 (1) ◽  
pp. 28-41 ◽  
Author(s):  
Xiao-Jin Hou ◽  
Sheng-Rui Liu ◽  
Muhammad Rehman Gul Khan ◽  
Chun-Gen Hu ◽  
Jin-Zhi Zhang
Keyword(s):  
Gene Family ◽  
Expression Profiling ◽  
Ssr Marker ◽  
Marker Development ◽  
Mads Box ◽  
Genome Wide ◽  
Mads Box Gene

Genome-wide Analysis of the MADS-Box Gene Family in Watermelon

2019 ◽  
Vol 80 ◽  
pp. 341-350 ◽  
Author(s):  
Ping Wang ◽  
Songbo Wang ◽  
Yong Chen ◽  
Xiaomin Xu ◽  
Xuanmin Guang ◽  
...  
Keyword(s):  
Gene Family ◽  
Mads Box ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Mads Box Gene

Genome-wide identification, characterisation and expression analysis of the MADS-box gene family in Prunus mume

2014 ◽  
Vol 289 (5) ◽  
pp. 903-920 ◽  
Author(s):  
Zongda Xu ◽  
Qixiang Zhang ◽  
Lidan Sun ◽  
Dongliang Du ◽  
Tangren Cheng ◽  
...  
Keyword(s):  
Gene Family ◽  
Expression Analysis ◽  
Prunus Mume ◽  
Mads Box ◽  
Genome Wide ◽  
Mads Box Gene

Genome-wide analysis of the MADS-box gene family in Populus trichocarpa

Gene ◽  
2006 ◽  
Vol 378 ◽  
pp. 84-94 ◽  
Author(s):  
Charles H. Leseberg ◽  
Aili Li ◽  
Hui Kang ◽  
Melvin Duvall ◽  
Long Mao
Keyword(s):  
Gene Family ◽  
Populus Trichocarpa ◽  
Mads Box ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Mads Box Gene

scholarly journals Genome-wide identification and characterization of the MADS-box gene family in Salix suchowensis

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e8019 ◽  
Author(s):  
Yanshu Qu ◽  
Changwei Bi ◽  
Bing He ◽  
Ning Ye ◽  
Tongming Yin ◽  
...  
Keyword(s):  
Gene Family ◽  
Expression Profiles ◽  
Evolutionary Analysis ◽  
Mads Box ◽  
Mads Box Genes ◽  
Floral Organogenesis ◽  
Functional Studies ◽  
Genome Wide ◽  
Development Processes ◽  
Mads Box Gene

MADS-box genes encode transcription factors that participate in various plant growth and development processes, particularly floral organogenesis. To date, MADS-box genes have been reported in many species, the completion of the sequence of the willow genome provides us with the opportunity to conduct a comprehensive analysis of the willow MADS-box gene family. Here, we identified 60 willow MADS-box genes using bioinformatics-based methods and classified them into 22 M-type (11 Mα, seven Mβ and four Mγ) and 38 MIKC-type (32 MIKCc and six MIKC*) genes based on a phylogenetic analysis. Fifty-six of the 60 SsMADS genes were randomly distributed on 19 putative willow chromosomes. By combining gene structure analysis with evolutionary analysis, we found that the MIKC-type genes were more conserved and played a more important role in willow growth. Further study showed that the MIKC* type was a transition between the M-type and MIKC-type. Additionally, the number of MADS-box genes in gymnosperms was notably lower than that in angiosperms. Finally, the expression profiles of these willow MADS-box genes were analysed in five different tissues (root, stem, leave, bud and bark) and validated by RT-qPCR experiments. This study is the first genome-wide analysis of the willow MADS-box gene family, and the results establish a basis for further functional studies of willow MADS-box genes and serve as a reference for related studies of other woody plants.

scholarly journals Genome-Wide Analysis and the Expression Pattern of the MADS-Box Gene Family in Bletilla striata

Plants ◽  
2021 ◽  
Vol 10 (10) ◽  
pp. 2184
Author(s):  
Ze-Yuan Mi ◽  
Qian Zhao ◽  
Chan Lu ◽  
Qian Zhang ◽  
Lin Li ◽  
...  
Keyword(s):  
Gene Family ◽  
Biological Activities ◽  
Expression Patterns ◽  
Perennial Herb ◽  
Mads Box ◽  
Bletilla Striata ◽  
Qpcr Analysis ◽  
Genome Wide ◽  
Mads Box Gene ◽  
Highly Correlated

Bletilla striata (Thunb. ex A. Murray) Rchb. f., a species of the perennial herb Orchidaceae, has potent anti-inflammatory and antiviral biological activities. MADS-box transcription factors play critical roles in the various developmental processes of plants. Although this gene family has been extensively investigated in many species, it has not been analyzed for B. striata. In total, 45 MADS-box genes were identified from B. striata in this study, which were classified into five subfamilies (Mδ, MIKC, Mα, Mβ, and Mγ). Meanwhile, the highly correlated protein domains, motif compositions, and exon–intron structures of BsMADSs were investigated according to local B. striata databases. Chromosome distribution and synteny analyses revealed that segmental duplication and homologous exchange were the main BsMADSs expansion mechanisms. Further, RT-qPCR analysis revealed that BsMADSs had different expression patterns in response to various stress treatments. Our results provide a potential theoretical basis for further investigation of the functions of MADS genes during the growth of B. striata.

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