Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Elsevier {BV}  

DOI： 10.1016/j.envexpbot.2021.104648

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Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Elsevier BV  

DOI： 10.1016/j.plaphy.2021.05.041

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Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Springer Science and Business Media LLC  

DOI： 10.1007/s00425-026-04964-6

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Other Link： https://link.springer.com/article/10.1007/s00425-026-04964-6

DOI： 10.1007/978-1-0716-4981-7_4

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Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Elsevier BV  

File： 1-s2.0-S2772899425000357-main.pdf

DOI： 10.1016/j.cropd.2025.100129

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Language：English  

<jats:p>To achieve global goals for sustainable development, such as zero hunger and ensuring food security, the effect of climate change on plant production and overcoming decreasing crop yields caused by environmental stress factors must be understood. Soil salinity is a serious environmental stress factor that threatens food security, combined with global warming, reduced arable land, and the growing human population. Seven percent of the total soil areas of the world are affected by salt, which represents 33% of agricultural land. These areas are getting increased due to unplanned irrigation and aridity. It is reported that 50% of the cultivation areas will be destroyed in 25 years, depending on increased salinity. One of the promising solutions is salt stress-tolerant plant breeding to improve crop yield and quality. Currently, conventional breeding strategies are increasing attention to salt-tolerant rice development. However, it takes a long time, has a relatively low success percentage, and has primitive parental selection progress, so conventional breeding methods must be improved. Combining molecular approaches and conventional breeding methods can be a promising approach to developing salt-tolerant rice to ensure food security. In this chapter, we will explain how conventional breeding methods can be combined with modern molecular methods and new approaches can be developed.</jats:p>

DOI： 10.5772/intechopen.1012497

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Publisher：Cold Spring Harbor Laboratory  

Understanding the rules that govern microbial community assembly is essential for predicting ecosystem function. While microbial predators are key biotic agents that shape bacterial communities through predation, yet their ecological consequences have been studied mostly in isolated and in vitro systems1,3. In contrast, large-scale studies of microbial diversity have primarily emphasized abiotic factors as drivers of community assembly 4,7, while the role of microbial predators modulating global microbial divergence and convergence patterns remains largely neglected. Here, we show that bacterivorous protists (predators) exert dual, scale-dependent effects on microbial communities: promoting local convergence by suppressing dominant bacterial taxa, while generating global divergence through species-specific predation effects. By integrating global meta-analyses, controlled field experiments, and reconstructions of natural and synthetic communities, we find that predator identity and prey susceptibility jointly determine convergence outcomes. Communities dominated by predator-resistant taxa exhibit reduced convergence under predation pressure, revealing a predictable trait-based filtering mechanism. This framework reconciles previous contradictory findings3,8,11 and highlights predators as selective, context-dependent agents of microbial biogeography. Predator-driven convergence suggests new opportunities for microbiome engineering 12: targeted use of predators may steer microbial communities toward functional configurations that enhance soil health, disease suppression, carbon cycling, and ecosystem resilience2,13,14.

DOI： 10.1101/2025.08.15.670637

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Language：English   Publishing type：Research paper (scientific journal)   Publisher：Oxford University Press (OUP)  

Abstract

The plant-microbe interactions, which is crucial for plant health and productivity, mainly occur in rhizosphere: a narrow zone of soil surrounding roots of living plants. The rhizosphere hosts one of the most intense habitats for microbial prey–predator interactions, especially between predatory protists and bacteria. Here, based on two key facts, microbial predators modulate rhizobacterial community composition, and the rhizobacterial community is the primary source of root microbiome, endophytes; we hypothesized that predation upon rhizobacteria would modulate the community composition of endophytic bacteria. The effects of three taxonomically distinct axenic protist species (Acanthamoeba castellanii, Vermamoeba vermiformis, and Heteromita globosa) were tested in this study. To examine the robustness of the hypotheses, the experiments were conducted in three soil types characterized by distinct bacterial communities and physicochemical properties. The bacterial community compositions were analyzed with high throughput sequencing. Bacterial gene abundances were estimated with a real-time-PCR method. The results showed that protists modulated endophytic communities, which originated in the rhizosphere soil. The modulation of endophytic communities by protists showed chaotic patterns rather than a deterministic effect under different soil types. The observed chaotic dynamics were further confirmed with an additional experiment, in which chaos was triggered by changes in the dilution rates of soil nutrients. Furthermore, the presence of predators enhanced the root colonization of endophytes. Our findings identify a key mechanism for the modulation of root endophytes and enhance understanding of underground plant-microbe interactions, which can lead to open new avenues for modulating the root microbiome to enhance crop production.

DOI： 10.1093/ismejo/wrae235

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Authorship：Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：MDPI AG  

Biofertilizers offer a sustainable method for improving rice growth and productivity, yet their effects on the interaction between plant growth, photosynthetic activity, and gene expression remain under-researched. This study examines how biofertilizer influences rice physiology, focusing on photosynthetic regulation and expression of chlorophyll-related genes. Eight fertilizer treatments were applied: control (CNT), biofertilizer (BF), deactivated biofertilizer (DABF), rice straw (RS), rice straw with biofertilizer (RS+BF), organic fertilizer (OF), organic fertilizer with biofertilizer (OF+BF), and inorganic fertilizer (IOF). Plant height, tiller number, SPAD, NDVI, chlorophyll content, and photosynthesis rates were measured, while gene expression analysis was conducted using RT-qPCR. The OF+BF treatment produced the most significant results, leading to a 31% increase in plant height, a 135% increase in tiller number, and a 42% increase in chlorophyll content (SPAD values) compared to the control. Additionally, OF+BF enhanced photosynthetic efficiency by 74%, with the highest net photosynthetic rate of 48.23 μmol CO2 m⁻2 s⁻1. Gene expression analysis revealed that OF+BF upregulated key photosynthesis-related genes, such as OsChlD and OsCHLM, showing a 70% and 90% increase in expression. These findings highlight the potential of integrating biofertilizers with organic fertilizers to sustainably boost rice growth and productivity, contributing to global food security and climate change mitigation.

File： sustainability-16-09297.pdf

DOI： 10.3390/su16219297

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Authorship：Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

File： stresses-04-00030.pdf

DOI： 10.3390/stresses4030030

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Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Springer Science and Business Media LLC  

DOI： 10.1007/s00344-024-11295-x

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Other Link： https://link.springer.com/article/10.1007/s00344-024-11295-x/fulltext.html

Authorship：Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

File： J-07-00006.pdf

DOI： 10.3390/j7010006

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Authorship：Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：MDPI AG  

High temperatures, drought, and salt stresses severely inhibit plant growth and production due to the effects of climate change. The Arabidopsis ARR1, ARR10, and ARR12 genes were identified as negative salt and drought stress regulators. However, in rice, the tolerance capacity of the hst1 gene, which is orthologous to the ARR1, ARR10, and ARR12 genes, to drought and multiple high temperature and drought stresses remains unknown. At the seedling and reproductive stages, we investigated the drought (DS) high temperature (HT) and multiple high temperature and drought stress (HT+DS) tolerance capacity of the YNU31−2−4 (YNU) genotype, which carries the hst1 gene, and its nearest genomic relative Sister Line (SL), which has a 99% identical genome without the hst1 gene. At the seedling stage, YNU demonstrated greater growth, photosynthesis, antioxidant enzyme activity, and decreased ROS accumulation under multiple HT+DS conditions. The YNU genotype also demonstrated improved yield potential and grain quality due to higher antioxidant enzyme activity and lower ROS generation throughout the reproductive stage under multiple HT+DS settings. Furthermore, for the first time, we discovered that the B−type response regulator hst1 gene controls ROS generation and antioxidant enzyme activities by regulating upstream and downstream genes to overcome yield reduction under multiple high temperatures and drought stress. This insight will help us to better understand the mechanisms of high temperature and drought stress tolerance in rice, as well as the evolution of tolerant crops that can survive increased salinity to provide food security during climate change.

File： ijms-25-02385.pdf

DOI： 10.3390/ijms25042385

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Language：English   Publishing type：Research paper (scientific journal)   Publisher：Elsevier BV  

DOI： 10.1016/j.envexpbot.2023.105483

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Authorship：Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

File： plants-12-01910.pdf

DOI： 10.3390/plants12091910

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Authorship：Lead author,　Corresponding author   Language：English   Publisher：{CRC} Press  

DOI： 10.1201/9781003250845-8

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Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

File： ijpb-14-00017.pdf

DOI： 10.3390/ijpb14010017

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Authorship：Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：{MDPI} {AG}  

Drought is an important abiotic stress factor limiting crop productivity worldwide and its impact is increasing with climate change. Regardless of the plant growth period, drought has a deadly and yield-reducing effect on the plant at every stage of development. As with many environmental stressors, drought-exposed plants trigger a series of molecular, biochemical, and physiological responses to overcome the effect of drought stress. Currently, researchers are trying to determine the complex functioning of drought stress response in plants with different approaches. Plants are more sensitive to drought stress during certain critical stages like germination, seedling formation, flowering, fertilization, and grain formation periods. Plants have high success in reducing the effects of drought stress in vegetative development periods with the activity of tolerance mechanisms. On the other hand, drought stress during the generative period can cause irreversible losses in yield. This review focuses on the progression of molecular, biochemical, and physiological mechanisms involved in the drought stress tolerance in plants and the responses of field crops to drought stress at different development stages.

File： physiologia-02-00015.pdf

DOI： 10.3390/physiologia2040015

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Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：{MDPI} {AG}  

Salinity is an abiotic stress factor that reduces yield and threatens food security in the world’s arid and semi-arid regions. The development of salt-tolerant genotypes is critical for mitigating yield losses, and this journey begins with the identification of sensitive and tolerant plants. Numerous physiologic and molecular markers for detecting salt-tolerant wheat genotypes have been developed. One of them is proline, which has been used for a long time but has received little information about proline-related genes in wheat genotypes. In this study, proline content and the expression levels of proline-related genes (TaPTF1, TaDHN, TaSRG, TaSC, TaPIMP1, TaMIP, TaHKT1;4, TaGSK, TaP5CS, and TaMYB) were examined in sensitive, moderate, and tolerant genotypes under salt stress (0, 50, 150, and 250 mM NaCl) for 0, 12, and 24 h. Our results show that salt stress increased the proline content in all genotypes, but it was found higher in salt-tolerant genotypes than in moderate and sensitive genotypes. The salinity stress increased gene expression levels in salt-tolerant and moderate genotypes. While salt-stress exposure for 12 and 24 h had a substantial effect on gene expression in wheat, TaPTF1, TaPIMP1, TaMIP, TaHKT1;4, and TaMYB genes were considerably upregulated in 24 h. The salt-tolerant genotypes showed a higher positive interaction than a negative interaction. The TaPTF1, TaP5CS, TaGSK1, and TaSRG genes were found to be more selective than the other analyzed genes under salt-stress conditions. Despite each gene’s specific function, increasing proline biosynthesis functioned as a common mechanism for separating salt tolerance from sensitivity.

File： plants-11-03401.pdf

DOI： 10.3390/plants11233401

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Language：English   Publishing type：Research paper (scientific journal)   Publisher：MDPI AG  

Here, for the first time, we aimed to identify in rice the key mechanisms and processes underlying tolerance to high-temperature (HT) or salt stress (SS) alone, the co-occurrence of both stresses, and recovery using physiological and biochemical measurements and gene expression analysis. We also investigated whether recovery from the two stressors depended on the relative intensities/relief of each stressor. Wild type (‘Yukinkomai’) rice plants were found to be more susceptible to salinity or heat applied individually. SS leads to a depletion of cellular water content, higher accumulation of Na+, and alterations in photosynthetic pigments. The stress-tolerant cultivar ‘YNU31-2-4’ (YNU) displayed a lower Na+/K+ ratio, higher water content in cells and improved photosynthetic traits, antioxidant system, and expression of defence genes. Strikingly, the SS + HT combination provided a significant level of protection to rice plants from the effects of SS alone. The expression pattern of a selected set of genes showed a specific response and dedicated pathways in plants subjected to each of the different stresses, while other genes were explicitly activated when the stresses were combined. Aquaporin genes were activated by SS, while stress-related (P5CS, MSD1, HSPs, and ions transporters) genes were shaped by HT. Hierarchical clustering and principal component analyses showed that several traits exhibited a gradually aggravating effect as plants were exposed to the combined stresses and identified heat as a mitigating factor, clearly separating heat + salt-stressed from salt-non-heat-stressed plants. Furthermore, seedling recovery was far more dependent on the relative intensities of stressors and cultivars, demonstrating the influence of one stressor over another upon stress-release. Taken together, our data show the uniqueness and complexity of the physiological and molecular network modules used by rice plants to respond to single and combined stresses and recovery.

File： plants-11-00501.pdf

DOI： 10.3390/plants11040501

PubMed

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Language：English   Publishing type：Research paper (scientific journal)   Publisher：Springer Science and Business Media {LLC}  

DOI： 10.1007/s00374-020-01525-1

Scopus

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Language：English   Publishing type：Research paper (scientific journal)   Publisher：MDPI AG  

File： mps-02-00054.pdf

DOI： 10.3390/mps2020054

Scopus

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Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

File： 195_2017-CJGPB.pdf

DOI： 10.17221/195/2017-CJGPB

Web of Science

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Language：English   Publishing type：Research paper (scientific journal)  

File： 41FEB_17_02082cr.pdf

Web of Science

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Publisher：{InTech}  

DOI： 10.5772/intechopen.70571

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Language：English  

DOI： 10.1016/j.jbiotec.2017.06.678

Web of Science

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Language：English   Publishing type：Research paper (scientific journal)  

File： ExplantPosition.pdf

DOI： 10.18054/pb.v119i3.5020

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Publishing type：Part of collection (book)   Publisher：InTech  

DOI： 10.5772/66465

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Authorship：Lead author   Language：English   Publishing type：Research paper (international conference proceedings)  

DOI： 10.1016/j.jbiotec.2016.05.156

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Language：English   Publishing type：Research paper (international conference proceedings)  

DOI： 10.1016/j.jbiotec.2016.05.157

Web of Science

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Language：Turkish   Publishing type：Research paper (scientific journal)  

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Language：English   Publishing type：Research paper (scientific journal)  

File： A_novel_method_for_high-frequency_transgenic_shoot.pdf

DOI： 10.5010/JPB.2016.43.2.240

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Language：English   Publishing type：Research paper (scientific journal)   Publisher：Science Publishing Group  

DOI： 10.11648/j.ijgg.20160403.12

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Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Science Publishing Group  

File： 10.11648.j.ajls.20150306.11.pdf

DOI： 10.11648/j.ajls.20150306.11

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Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

File： tylidiz_8_7_2014_1019_1023.pdf

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Language：English   Publishing type：Research paper (international conference proceedings)  

DOI： 10.1016/j.copbio.2013.05.084

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Authorship：Last author   Language：English   Publishing type：Research paper (international conference proceedings)  

DOI： 10.1016/j.copbio.2013.05.076

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Language：English   Publishing type：Research paper (international conference proceedings)  

DOI： 10.1016/j.copbio.2013.05.399

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DOI： 10.5772/intechopen.99878

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DOI： 10.5772/intechopen.70571

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DOI： 10.5772/66465

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