SynDiv: An efficient tool for chromosome collinearity-based population genomics analyses DOI Creative Commons

Zezhen Du,

Jiabao He, Wen‐Biao Jiao

et al.

Plant Communications, Journal Year: 2024, Volume and Issue: 5(12), P. 101071 - 101071

Published: Aug. 24, 2024

Language: Английский

Effects of Fertilization and Drip Irrigation on the Growth of Populus × canadensis ‘Zhongliao 1’ Plantation and on Soil Physicochemical Properties and Enzyme Activities DOI Open Access
Yan Zhang,

Nairui Wang,

Lingyu Yang

et al.

Forests, Journal Year: 2024, Volume and Issue: 15(9), P. 1651 - 1651

Published: Sept. 19, 2024

Poplars are crucial for timber supply and ecological protection in China. Enhancing the growth of poplar plantations improving soil fertility arid, semi-arid poor regions key aspects sustainable forest management. Fertilization (FTL) drip irrigation (DI) among most widely used methods globally increasing yield productivity. This study conducted field experiments on FTL DI a 10-year-old Populus × canadensis ‘Zhongliao 1’ (cultivation varieties P. northern China) plantation. limits were set according to moisture at 60% (S1), 70% (S2), 80% (S3) capacity; nitrogen rates 100% baseline fertilization amount (100% BFA, N 643.20 g·year−1, P 473.37 K 492.29 g·year−1) (F1), BFA (F2), 130% (F3), 160% (F4). The treatments fertigation (DIF) H1 FC), H2 H3 (160% H4 along with control group (CK) without any management, totaling 12 experimental combinations. results showed that had significant promoting effect height, DBH, volume increments. All little bulk density plantation but significantly impacted capillary porosity pH. Compared DI, nutrient organic matter content more sensitive FTL. Appropriate can increase sucrase activity. Soil urease activity tended higher rates, levels also positively influenced Excessive or insufficient nutrients negatively cellulase catalase activities. Correlation analysis revealed no correlation between content, highly correlations existed related enzyme Comprehensive evaluation using membership function indicated high (F4) conducive simultaneous improvement plantation, followed by F1, suggesting is factor affecting restoration stand productivity, being secondary.

Language: Английский

Citations

1

AMIR: a multi-omics data platform for Asteraceae plants genetics and breeding research DOI Creative Commons
Dongxu Liu,

Chengfang Luo,

Rui Dai

et al.

Nucleic Acids Research, Journal Year: 2024, Volume and Issue: 53(D1), P. D1563 - D1575

Published: Oct. 8, 2024

As the largest family of dicotyledon, Asteraceae comprises a variety economically important crops, ornamental plants and numerous medicinal herbs. Advancements in genomics transcriptomic have revolutionized research species, generating extensive omics data that necessitate an efficient platform for integration analysis. However, existing databases face challenges mining genes with specific functions supporting cross-species studies. To address these gaps, we introduce Multi-omics Information Resource (AMIR; https://yanglab.hzau.edu.cn/AMIR/), multi-omics hub plant community. AMIR integrates diverse from 74 encompassing 132 genomes, 4 408 432 annotated across seven different perspectives, 3897 transcriptome sequencing samples spanning 131 organs, tissues stimuli, 42 765 290 unique variants 15 662 metabolites genes. Leveraging data, establishes first pan-genome, comparative system family. Furthermore, offers user-friendly tools designed to facilitate customized bioinformatics analyses. Two case studies demonstrate AMIR's capability provide rapid, reproducible reliable analysis results. In summary, by integrating species developing powerful analytical tools, significantly advances functional contributes breeding practices Asteraceae.

Language: Английский

Citations

1

The Current Status and Prospects of the Application of Omics Technology in the Study of Ulmus DOI Open Access
Shijie Wang,

Lihui Zuo,

Yichao Liu

et al.

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(23), P. 12592 - 12592

Published: Nov. 23, 2024

Elm (Ulmus) species are important components of forest resources with significant ecological and economic value. As tall hardwood trees that drought-resistant, poor-soil-tolerant, highly adaptable, Ulmus an excellent choice for ecologically protected forests urban landscaping. Additionally, the bioactive substances identified in fruits, leaves, bark, roots have potential applications food medical fields as raw materials industrial cosmetic applications. However, survival natural environment has been threatened by recurrent outbreaks Dutch elm disease, which led to death large numbers trees. In addition, severe damage habitats some is driving their populations extinction. Omics technology become tool collection, protection, biological characteristic analysis due its recent advances. This article summarizes current research application status omics Ulmus. The remaining problems noted, future directions proposed. Our review aimed at providing a reference resource conservation scientific into this genus.

Language: Английский

Citations

0

The chromosome-level genome assembly of an endangered herb Bergenia scopulosa provides insights into local adaptation and genomic vulnerability under climate change DOI Creative Commons
Yixin Yang, Meng Wang,

Xuan-Ye Wu

et al.

GigaScience, Journal Year: 2024, Volume and Issue: 13

Published: Jan. 1, 2024

Abstract Background Global climate change poses severe threats to biodiversity and ecosystem stability. Rapid oscillations potentially lead species geographic range shifts, population declines, even extinctions. The rare endangered species, being critical components of regional biodiversity, hold the key understanding local adaptation evolutionary processes shaping distributions. Therefore, assessing mechanisms vulnerability under is crucial for developing conservation strategies species. Results In this study, we assembled a high-quality, chromosome-level genome herb Bergenia scopulosa in Qinling Mountains East Asia resequenced 37 individual genomes spanning its entire distributional ranges. By integrating genetics, landscape genomics, datasets, substantial number adaptive single-nucleotide polymorphism loci associated with variables were identified. genotype–environment association analysis showed that some cold-tolerant genes have played pivotal roles cold environmental B. scopulosa. These findings are further corroborated through gene family quantitative PCR validation. Population genomic revealed 2 distinct genetic lineages western lineage higher more cold-tolerance alleles, suggesting heightened sensitivity impending should be given priority management practices. Conclusions provide novel insights into Asia. Additionally, study also offers valuable guidance formulating plants.

Language: Английский

Citations

0

SynDiv: An efficient tool for chromosome collinearity-based population genomics analyses DOI Creative Commons

Zezhen Du,

Jiabao He, Wen‐Biao Jiao

et al.

Plant Communications, Journal Year: 2024, Volume and Issue: 5(12), P. 101071 - 101071

Published: Aug. 24, 2024

Language: Английский

Citations

0