Since the official release of the stand-alone bioinformatics toolkit TBtools in 2020, its superior functionality in data analysis has been demonstrated by its widespread adoption by many thousands of users and references in more than 5000 academic articles. Now, TBtools is a commonly used tool in biological laboratories. Over the past 3 years, thanks to invaluable feedback and suggestions from numerous users, we have optimized and expanded the functionality of the toolkit, leading to the development of an upgraded version—TBtools-II. In this upgrade, we have incorporated over 100 new features, such as those for comparative genomics analysis, phylogenetic analysis, and data visualization. Meanwhile, to better meet the increasing needs of personalized data analysis, we have launched the plugin mode, which enables users to develop their own plugins and manage their selection, installation, and removal according to individual needs. To date, the plugin store has amassed over 50 plugins, with more than half of them being independently developed and contributed by TBtools users. These plugins offer a range of data analysis options including co-expression network analysis, single-cell data analysis, and bulked segregant analysis sequencing data analysis. Overall, TBtools is now transforming from a stand-alone software to a comprehensive bioinformatics platform of a vibrant and cooperative community in which users are also developers and contributors. By promoting the theme "one for all, all for one", we believe that TBtools-II will greatly benefit more biological researchers in this big-data era.

Circos plots enable scientists to easily inspect big biological data genome-widely on a macroscopic scale, but cumbersome preparation of input data and complex parameter configuration limits its application. We have developed the "Advanced Circos" function in TBtools, to provide a simple way to construct Circos plots. As an out-of-the-box combo toolkit, TBtools has integrated a set of functions convenient for input data preparation. The "Advanced Circos" function is supplied with a user-friendly interface for the customization of parameter settings and can be deployed to visualize all kinds of genomic data, such as genomic associations, alignment data, gene density, and QTL locations. In the present article, we introduce the main features of "Advance Circos" and the protocols of upstream data preparation, aiming to endow more users with the ability to use Circos plots in big genomic data exploration.

以芥蓝(Brassica capitata)为实验材料,研究了采后真空预冷处理对芥蓝冷链物流运输后在常温货架期(25℃)品质的影响.通过测定相关指标,结果表明:采后真空预冷显著地降低了芥蓝在常温货架期间的失重率、黄化指数和相对电导率,延缓了叶片的叶绿素荧光参数(Fv/Fm)、可溶性固形物(TSS)、蛋白及VC等含量的下降;至常温货架期第3d,经过预冷的芥蓝,其失重率、黄化指数和相对电导率分别为未预冷的77％、73％和51％,而Fv/Fm、蛋白及VC含量分别为未预冷的5.5、6.5和1.4倍.说明预冷能够较好地维持芥蓝在常温货架期间的品质.

WRKY is a plant-specific transcription factor (TF) involved in the regulation of many biological processes; however, its role in leaf senescence of leafy vegetables remains unknown. In the present work, a WRKY TF, termed BrWRKY75 was isolated from Chinese flowering cabbage [Brassica rapa L. ssp. chinensis (L.) Mokino var. utilis Tsen et Lee]. Analysis of deduced amino acid sequence and the phylogenetic tree showed that BrWRKY75 has high homology with WRKY75 from Brassica oleracea and Arabidopsis thaliana, and belongs to the II c sub-group. Sub-cellular localization and transcriptional activity analysis revealed that BrWRKY75 is a nuclear protein with transcriptional repression activity, and was up-regulated during leaf senescence. Electrophoretic mobility shift assay confirmed that BrWRKY75 directly bound to the W-box (TTGAC) cis-element. Collectively, these results provide a basis for further investigation of the transcriptional regulation of Chinese flowering cabbage leaf senescence.