BACKGROUND LBDs, as the plant-specific gene family, play essential roles in lateral organ development, plant regeneration, as well as abiotic stress and pathogen response. However, the number and characteristic of LBD genes in Pyscomitrella patens were still obscure. OBJECTIVE This study was performed to identify the LBD family gene in moss and to determine the expression profiles of LBDs under the abiotic and pathogen stress. METHODS Complete genome sequences and transcriptomes of P. patens were downloaded from the Ensembl plant database. The hidden Markov model-based profile of the conserved LOB domain was submitted as a query to identify all potential LOB domain sequences with HMMER software. Expression profiles of PpLBDs were obtained based on the GEO public database and qRT-PCR analysis. RESULTS In this study, a total of 31 LBDs were identified in the P. patens genome, divided into two classes based on the presence of the leucine zipper-like coiled-coil motif. A phylogenetic relationship was obtained between 31 proteins from P. patens and 43 proteins from the Arabidopsis thaliana genome, providing insights into their conserved and potential functions. Furthermore, the exon-intron organization of each PpLBD were analyzed. All PpLBD contain the conserved DNA binding motif (CX2CX6CX3C zinc finger-like motif), and were predicted to be located in cell nuclear. The 31 PpLBD genes were unevenly assigned to 18 out of 27 chromosomes based on the physical positions. Among these genes, PpLBD27 was not only remarkably highest expressed in desiccation, but also a susceptible gene to pathogens through jasmonic acid-mediated signaling pathway. Most of PpLBDs were up-regulated with the treatment of mannitol. These results showed they were differentially induced and their potential functions in the environmental stimulus of the early terrestrial colonizers. CONCLUSION Despite significant differences in the life cycle in P. patens and flowering plants, their functions involved in abiotic and biotic stress-regulated by LBDs have been identified and appear to be conserved in the two lineages. These results provided a comprehensive analysis of PpLBDs and paved insights into studies aimed at a better understanding of PpLBDs.

中文翻译：

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全基因组范围内的侧柏边界区和应力反应中的横向器官边界域的分析。

背景技术LBD，作为植物特异性基因家族，在侧器官发育，植物再生以及非生物胁迫和病原体应答中起重要作用。但是，在鼠李果中LBD基因的数量和特征仍然不清楚。目的进行这项研究以鉴定苔藓中的LBD家族基因，并确定在非生物和病原体胁迫下LBD的表达谱。方法从Ensembl植物数据库中下载彭定康的完整基因组序列和转录组。保守的LOB域的基于隐式马尔可夫模型的概要文件已作为查询提交，以使用HMMER软件识别所有潜在的LOB域序列。基于GEO公共数据库和qRT-PCR分析获得PpLBD的表达谱。结果在这项研究中，在彭氏疟原虫基因组中共鉴定出31个LBD，根据亮氨酸拉链样卷曲螺旋基序的存在将其分为两类。系统发育的关系从P. patens的31个蛋白和拟南芥的基因组的43个蛋白之间获得，提供了对其保守和潜在功能的见解。此外，分析了每个PpLBD的外显子-内含子组织。所有PpLBD均包含保守的DNA结合基序（CX2CX6CX3C锌指状基序），并被预测位于细胞核中。根据物理位置，将31个PpLBD基因不均匀地分配给27条染色体中的18条。在这些基因中，PpLBD27不仅在干燥中表达最高，而且还是通过茉莉酸介导的信号通路对病原体敏感的基因。大多数PpLBDs随甘露醇的处理而上调。这些结果表明，它们在早期陆地定居者的环境刺激中被不同程度地诱导并且具有潜在的功能。结论尽管在彭定康和开花植物的生命周期中存在显着差异，但已经确定了它们在由LBD调节的非生物和生物胁迫中所涉及的功能，并且似乎在这两个谱系中都是保守的。这些结果提供了对PpLBDs的全面分析，并为旨在更好地了解PpLBDs的研究铺平了道路。彭定康和开花植物，它们的功能参与了由LBD调控的非生物和生物胁迫，并且在这两个谱系中都被认为是保守的。这些结果提供了对PpLBDs的全面分析，并为旨在更好地了解PpLBDs的研究铺平了道路。彭定康和开花植物，它们的功能参与了由LBD调控的非生物和生物胁迫，并且在这两个谱系中都被认为是保守的。这些结果提供了对PpLBDs的全面分析，并为旨在更好地了解PpLBDs的研究铺平了道路。