Genome-wide identification and characterization of the ALOG gene family in Petunia
Genome-wide identification and characterization of the ALOG gene family in Petunia
复制标题
矮牵牛 ALOG 基因家族的全基因组鉴定和表征
DOI：
10.1186/s12870-019-2127-x
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发表时间：
2019-12-30
影响因子：
5.3
通讯作者：
Liu, Guofeng
中科院分区：
文献类型：
--
作者：
Chen, Feng;Zhou, Qin;Liu, Guofeng
背景
ALOG（拟南芥 LSH1 和 Oryza G1）蛋白家族，即 DUF640（功能未知的结构域 640）结构域蛋白，在陆地植物中被发现。拟南芥和水稻等模型植物中一些 ALOG 成员的功能表征表明它们在植物发育中发挥着重要的调节作用。然而，有关其进化的信息在很大程度上是有限的，并且对于重要观赏植物矮牵牛的ALOG基因还没有任何报道。
结果
基于基因组和/或转录组数据库，在四种矮牵牛中鉴定了 ALOG 基因，包括 P. axillaris、P. infata、P. integrifolia 和 P. exserta，并通过从 P.hybrida ‘W115’（Mitchel 二倍体）（一种流行的实验室矮牵牛品系，易发生遗传转化）的克隆进一步得到证实。系统发育分析表明，矮牵牛ALOG基因（根据其最接近的拟南芥同源物命名为LSH）分为4个进化枝，进一步可分为8个类群，并且在同一类群中反映出相似的外显子-内含子结构和基序。杂交矮牵牛‘W115’的PhLSH基因主要来源于酸枣。 qPCR 分析揭示了它们之间不同的空间表达模式，表明潜在的功能多样化。此外，在拟南芥中过度表达PhLSH7a和PhLSH7b揭示了它们在营养和生殖器官发育中的功能。
结论
矮牵牛基因组包括 11 个 ALOG 基因，可分为 8 个不同的组，并且它们也表现出不同的表达模式。其中PhLSH7b和PhLSH7a在植物生长发育特别是果实发育中发挥着重要作用。我们的研究结果为ALOG基因家族的进化提供了新的见解，为今后矮牵牛LSH基因的研究奠定了良好的基础。
Background
The ALOG (Arabidopsis LSH1 and Oryza G1) family of proteins, namely DUF640 (domain of unknown function 640) domain proteins, were found in land plants. Functional characterization of a few ALOG members in model plants such as Arabidopsis and rice suggested they play important regulatory roles in plant development. The information about its evolution, however, is largely limited, and there was no any report on the ALOG genes in Petunia, an important ornamental species.
Results
The ALOG genes were identified in four species of Petunia including P. axillaris, P. inflata, P. integrifolia, and P. exserta based on the genome and/or transcriptome databases, which were further confirmed by cloning from P. hybrida ‘W115’ (Mitchel diploid), a popular laboratorial petunia line susceptible to genetic transformation. Phylogenetic analysis indicated that Petunia ALOG genes (named as LSHs according to their closest Arabidopsis homologs) were grouped into four clades, which can be further divided into eight groups, and similar exon-intron structure and motifs are reflected in the same group. The PhLSH genes of hybrid petunia ‘W115’ were mainly derived from P. axillaris. The qPCR analysis revealed distinct spatial expression patterns among them suggesting potentially functional diversification. Moreover, over-expressing PhLSH7a and PhLSH7b in Arabidopsis uncovered their functions in the development of both vegetative and reproductive organs.
Conclusions
Petunia genome includes 11 ALOG genes that can be divided into eight distinct groups, and they also show different expression patterns. Among these genes, PhLSH7b and PhLSH7a play significant roles in plant growth and development, especially in fruit development. Our results provide new insight into the evolution of ALOG gene family and have laid a good foundation for the study of petunia LSH gene in the future.