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Intergeneric chromosome-specific painting reveals differential chromosomal transmission from Tripidium arundinaceum in sugarcane progeny
Fan Yu, Zehuai Yu, Jin Chai, Xikai Yu, Chen Fu, Xinwang Zhao, Hailong Chang, Jiawei Lei, Baoshan Chen, Wei Yao, Muqing Zhang, Jiayun Wu, Qinnan Wang, Zuhu Deng
2024, 23 (11): 3751-3762.   DOI: 10.1016/j.jia.2024.08.019
Abstract78)      PDF in ScienceDirect      
Sugarcane has recently attracted increasing attention for its potential as a source of sugar and bioethanol, so increasing its yield is essential to ensure the sugar security and bioenergy production.  Intergeneric hybridization is a highly efficient method to produce new genetic variants of crop plants, particularly those species with high ploidy such as sugarcane (Saccharum spp.).  Tripidium arundinaceum exhibits many desirable agronomic traits, and has been widely studied to produce hybrids with improved stress tolerance and other characteristics in sugarcane breeding.  However, the genetic relationship between Tarundinaceum and Saccharum species, and the individual Tarundinaceum chromosomal compositions in sugarcane hybrids are still elusive.  Here we used whole-genome single-nucleotide polymorphisms (SNPs) to ascertain the phylogenetic relationships between these species and found that Tarundinaceum is more closely related to Saccharum than Sorghum, in contrast to the previous narrow genetic analyses using chloroplast DNA.  Additionally, oligonucleotide (oligo)-based chromosome-specific painting derived from Saccharum officinarum was able to distinctly identify the chromosomes of Tarundinaceum.  We developed the oligo-genomic in situ hybridization (GISH) system for the first time, to unveil the novel chromosome translocations and the transmission of individual Tarundinaceum chromosomes in sugarcane progeny.  Notably, we discovered that the chromosomal transmission of T. arundinaceum exhibited several different inheritance modes, including n, 2n, and over 2n in the BC1 progenies.  Such inheritance patterns may have resulted from first division restitution (FDR) or FDR+nondisjunction of a chromosome with the sister chromatids in the second meiosis division/second division restitution (FDR+NSC/SDR) model during meiosis.  These results will be of substantial benefit for the further selection of T. arundinaceum chromosomes for sugarcane genetic improvement.


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Response of leaf stomatal and mesophyll conductance to abiotic stress factors
LI Sheng-lan, TAN Ting-ting, FAN Yuan-fang, Muhammad Ali RAZA, WANG Zhong-lin, WANG Bei-bei, ZHANG Jia-wei, TAN Xian-ming, CHEN Ping, Iram SHAFIQ, YANG Wen-yu, YANG Feng
2022, 21 (10): 2787-2804.   DOI: 10.1016/j.jia.2022.07.036
Abstract264)      PDF in ScienceDirect      

Plant photosynthesis assimilates CO2 from the atmosphere, and CO2 diffusion efficiency is mainly constrained by stomatal and mesophyll resistance.  The stomatal and mesophyll conductance of plants are sensitive to abiotic stress factors, which affect the CO2 concentrations at carboxylation sites to control photosynthetic rates.  Early studies conducted relevant reviews on the responses of stomatal conductance to the environment and the limitations of mesophyll conductance by internal structure and biochemical factors.  However, reviews on the abiotic stress factors that systematically regulate plant CO2 diffusion are rare.  Therefore, in this review, the rapid and long-term responses of stomatal and mesophyll conductance to abiotic stress factors (such as light intensity, drought, CO2 concentration and temperature) and their physiological mechanisms are summarized.  Finally, future research trends are also investigated.

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Constructing the wolfberry (Lycium spp.) genetic linkage map using AFLP and SSR markers
YIN Yue, AN Wei, ZHAO Jian-hua, LI Yan-long, FAN Yun-fang, CHEN Jin-huan, CAO You-long, ZHAN Xiang-qiang
2022, 21 (1): 131-138.   DOI: 10.1016/S2095-3119(21)63610-9
Abstract165)      PDF in ScienceDirect      
Genetic linkage maps are important for quantitative trait locus (QTL) and marker-assisted selection breeding.  The wolfberry (Lycium spp.) is an important food and traditional medicine in China.  However, few construction genetic linkage maps have been reported because of the lack of genomic and genetic resources.  In this study, a population of 89 F1 seedings was derived from a cross between two heterozygous parents, L. chinense var. potaninii ‘BF-01’ (female) and L. barbarum var. auranticarpum ‘NH-01’ (male), in order to construct a genetic linkage map using simple sequence repeat (SSR) and amplified fragment length polymorphism (AFLP) markers based on the double pseudo-test cross mapping strategy.  The resulting genetic map consisted of 165 markers (74 AFLPs and 91 SSRs) distributed across 12 linkage groups and spanned a total length of 557.6 cM with an average distance of 3.38 cM between adjacent markers.  The 12 linkage groups contained 3 to 21 markers and ranged in length from 8.6 to 58.3 cM.  Twenty-nine segregated markers distributed in the map were mainly located on LG4 and LG9 linkage groups at P<0.05.  This is the first linkage map of Lycium species using SSR and AFLP markers, which can serve as basis for improving genes and selective breeding of the genome assembly.
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Synergistic effect of Si and K in improving the growth, ion distribution and partitioning of Lolium perenne L. under saline-alkali stress
FAN Yuan, SHEN Wu-yan, Pino VANESSA, CHENG Fang-qin
2021, 20 (6): 1660-1673.   DOI: 10.1016/S2095-3119(20)63277-4
Abstract127)      PDF in ScienceDirect      
The application of Si or K has proven to be beneficial for the growth of plants under saline-alkali stress.  However, the synergistic effect of Si and K in improving the growth, ion distribution, and partitioning in Lolium perenne L. under saline-alkali stress remains unclear.  In this study, the growth characteristics and ion-selective absorption of ryegrass (Lolium perenne L.) exposed to different levels of saline-alkali stress were evaluated.  The growth parameters of ryegrass were significantly improved when Si was applied by itself or coupled with K under low saline-alkali stress.  Under a high saline-alkali level, only simultaneous application of Si and K could significantly improve the growth of ryegrass.  When Si and K were applied together, the K+/Na+ and Ca2+/Na+ ratios in root, stem, and leaf of ryegrass were maximally improved as compared to the individual treatments and control.  The K+ and Ca2+ concentrations in the vacuole, cell wall, and organelle of leaf were increased dramatically.  This improvement was due to the ability of applied ions to compete with Na+, allowing the plant to maintain osmotic potential and leaf water content.  The concentration of Na+ was significantly reduced when Si and K were applied and mainly concentrated in the soluble fraction and cell wall.  The Si concentration in ryegrass increased markedly by the combined application of Si and K, and most of it was accumulated in the cell wall and soluble fraction, which could help in chlorophyll synthesis, reduce membrane injury, and increase water absorption under saline-alkali stress.  This study emphasized the advantage of Si and/or K on the growth of plants under different saline-alkaline levels and provided a guide for the production of Si-K fertilizer and its application in saline-alkali soil. 
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Crop photosynthetic response to light quality and light intensity
Iram SHAFIQ, Sajad HUSSAIN, Muhammad Ali RAZA, Nasir IQBAL, Muhammad Ahsan ASGHAR, Ali RAZA, FAN Yuan-fang, Maryam MUMTAZ, Muhammad SHOAIB, Muhammad ANSAR, Abdul MANAF, YANG Wen-yu, YANG Feng
2021, 20 (1): 4-23.   DOI: 10.1016/S2095-3119(20)63227-0
Abstract193)      PDF in ScienceDirect      
Under natural conditions, plants constantly encounter various biotic and abiotic factors, which can potentially restrict plant growth and development and even limit crop productivity.  Among various abiotic factors affecting plant photosynthesis, light serves as an important factor that drives carbon metabolism in plants and supports life on earth.  The two components of light (light quality and light intensity) greatly affect plant photosynthesis and other plant’s morphological, physiological and biochemical parameters.  The response of plants to different spectral radiations and intensities differs in various species and also depends on growing conditions.  To date, much research has been conducted regarding how different spectral radiations of varying intensity can affect plant growth and development.  This review is an effort to briefly summarize the available information on the effects of light components on various plant parameters such as stem and leaf morphology and anatomy, stomatal development, photosynthetic apparatus, pigment composition, reactive oxygen species (ROS) production, antioxidants, and hormone production.
 
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Maize ABP2 enhances tolerance to drought and salt stress in transgenic Arabidopsis
ZONG Na, LI Xing-juan, WANG Lei, WANG Ying, WEN Hong-tao, LI Ling, ZHANG Xia, FAN Yun-liu, ZHAO Jun
2018, 17 (11): 2379-2393.   DOI: 10.1016/S2095-3119(18)61947-1
Abstract375)      PDF (35768KB)(362)      
Abiotic stresses, especially drought and salt, severely affect maize production, which is one of the most important cereal crops in the world.  Breeding stress-tolerant maize through biotechnology is urgently needed to maintain maize production.  Therefore, it is important to identify new genes that can enhance both drought and salt stress tolerance for molecular breeding. In this study, we identified a maize ABA (abscisic acid)-responsive element (ABRE) binding protein from a 17-day post-pollination (dpp) maize embryo cDNA library by yeast one-hybrid screen using the ABRE2 sequence of the maize Cat1 gene as bait.  This protein, designated, ABRE binding protein 2 (ABP2), belongs to the bZIP transcription factor family.  Endogenous expression of ABP2 in maize can be detected in different tissues at various development stages, and can be induced by drought, salt, reactive oxygen species (ROS)-generating agents, and ABA treatment.  Constitutive expression of ABP2 in transgenic Arabidopsis plants enhanced tolerance to drought and salt stress, and increased sensitivity to ABA.  In exploring the mechanism by which ABP2 can stimulate abiotic stress tolerance, we found that ROS levels were reduced and expression of stress-responsive and carbon metabolism-related genes was enhanced by constitutive ABP2 expression in transgenic plants.  In short, we identified a maize bZIP transcription factor which can enhance both drought and salt tolerance of plants.
 
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Shade adaptive response and yield analysis of different soybean genotypes in relay intercropping systems
WU Yu-shan, YANG Feng, GONG Wan-zhuo, Shoaib Ahmed, FAN Yuan-fang, WU Xiao-ling, YONG Tai-wen, LIU Wei-guo, SHU Kai, LIU Jiang, DU Jun-bo, YANG Wen-yu
2017, 16 (06): 1331-1340.   DOI: 10.1016/S2095-3119(16)61525-3
Abstract917)      PDF in ScienceDirect      
Soybean is one of the major oil seed crops, which is usually intercropped with other crops to increase soybean production area and yield.  However, soybean is highly sensitive to shading.  It is unclear if soybean morphology responds to shading (i.e., shade tolerance or avoidance) and which features may be suitable as screening materials in relay strip intercropping.  Therefore, in this study, various agronomic characteristics of different soybean genotypes were analyzed under relay intercropping conditions.  The soybean materials used in this study exhibited genetic diversity, and the coefficient of variations of the agronomic parameters ranged from 13.84 to 72.08% during the shade period and from 6.44 to 52.49% during the maturity period.  The ratios of shading to full irradiance in stem mass fraction (SMF) were almost greater than 1, whereas opposite results were found in the leaves.  Compared with full irradiance, the average stem length (SL), leaf area ratio (LAR) and specific leaf area (SLA) for the two years (2013 and 2014) increased by 0.78, 0.47 and 0.65 under shady conditions, respectively.  However, the stem diameter (SD), total biomass (TB), leaf area (LA), number of nodes (NN) on the main stem, and number of branches (BN) all decreased.  During the shady period, the SL and SMF exhibited a significant negative correlation with yield, and the SD exhibited a significant positive correlation with yield.  The correlation between the soybean yield and agronomic parameters during the mature period, except for SL, the first pod height (FPH), 100-seed weight (100-SW), and reproductive growth period (RGP), were significant (P<0.01), especially for seed weight per branch (SWB), pods per plant (PP), BN, and vegetative growth period (VGP).  These results provide an insight into screening the shade tolerance of soybean varieties and can be useful in targeted breeding programs of relay intercropped soybeans.  
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Long-term rice-rice-green manure rotation changing the microbial communities in typical red paddy soil in South China
GAO Song-juan, ZHANG Ren-gang, CAO Wei-dong, FAN Yuan-yuan, GAO Ju-sheng, HUANG Jing, BAI Jin-shun, ZENG Nao-hua, CHANG Dan-na, Shimizu Katsu-yoshi, Kristian Thorup-Kristensen
2015, 14 (12): 2512-2520.   DOI: 10.1016/S2095-3119(15)61230-8
Abstract2230)      PDF in ScienceDirect      
On the basis of a long-term (30 years) field experiment that involved four rotation systems, rice-rice-winter fallow (RRF), rice-rice-ryegrass (RRG), rice-rice-rape (RRP), and rice-rice-milk vetch (RRV), this study described the effects of green manure on the microbial communities in the red paddy soils using 454 pyrosequencing for the 16S rRNA gene. The Chao1 richness and non-parametric Shannon’s index increased in all soil samples that received green manure treatments. The communities’ structures with the green manure applications were significantly dissimilar from that under the winter fallow. Using Metastats tests, many genera in the RRG, RRP and RRV soils were significantly different from those in the RRF soil, including a number of genera that functioned in the nitrogen and sulfur cycles. Analyses of the genera with these functions revealed the shifts in microbial ecosystem functions after long-term green manuring. Changes in the microbial communities increased the ammonium supply and decreased the soil acidification in green-manure-amended soils. Together, these data suggested powerful effects of green manure on both the microbial communities and the biogeochemical cycle driven by the shifts in bacterial functional groups.
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Molecular Mapping of a Stripe Rust Resistance Gene YrH9020a Transferred from Psathyrostachys huashanica Keng on Wheat Chromosome 6D
LIU Ze-guang, YAO Wei-yuan, SHEN Xue-xue, CHAO Kai-xiang, FAN Yu, LI Min-zhou, WANG Baotong, LI Qiang , JING Jin-xue
2014, 13 (12): 2577-2583.   DOI: 10.1016/S2095-3119(14)60755-3
Abstract1872)      PDF in ScienceDirect      
Stripe rust (yellow rust), caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most devastating diseases of wheat throughout the world. H9020-1-6-8-3 is a translocation line originally developed from interspecific hybridization between wheat line 7182 and Psathyrostachys huashanica Keng and is resistant to most Pst races in China. To identify the resistance gene(s) in the translocation line, H9020-1-6-8-3 was crossed with susceptible cultivar Mingxian 169, and seedlings of the parents, F1, F2, F3, and BC1 generations were tested with prevalent Chinese Pst race CYR32 under controlled greenhouse conditions. The results indicated that there is a single dominant gene, temporarily designated as YrH9020a, conferring resistance to CYR32. The resistance gene was mapped by the F2 population from Mingxian 169/H9020-1-6-8-3. It was linked to six microsatellite markers, including Xbarc196, Xbarc202, Xbarc96, Xgpw4372, Xbarc21, and Xgdm141, flanked by Xbarc96 and Xbarc202 with at 4.5 and 8.3 cM, respectively. Based on the chromosomal locations of these markers and the test of Chinese Spring (CS) nullitetrasomic and ditelosomic lines, the gene was assigned to chromosome 6D. According to the origin and the chromosomal location, YrH9020a might be a new resistance gene to stripe rust. The flanking markers linked to YrH9020a could be useful for marker-assisted selection in breeding programs.
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Stk2, a Mitogen-Activated Protein Kinase from Setosphaeria turcica, Specifically Complements the Functions of the Fus3 and Kss1 of Saccharomyces cerevisiae in Filamentation, Invasive Growth, and Mating Behavior
GU Shou-qin, YANG Yang, LI Po, ZHANG Chang-zhi, FAN Yu, ZHANG Xiao-yu, TIAN Lan
2013, 12 (12): 2209-2216.   DOI: 10.1016/S2095-3119(13)60296-8
Abstract2429)      PDF in ScienceDirect      
Setosphaeria turcica, an essential phytopathogenic fungus, is the primary cause of serious yield losses in corn; however,
its pathogenic mechanism is poorly understood. We cloned STK2, a newly discovered mitogen-activated protein kinase gene with a deduced amino acid sequence that is 96% identical to MAK2 from Phaeosphaeria nodorum, 56% identical to
KSS1 and 57% identical to FUS3 from Saccharomyces cerevisiae. To deduce Stk2 function in S. turcica and to identify the
genetic relationship between STK2 and KSS1/FUS3 from S. cerevisiae, a restructured vector containing the open reading
frame of STK2 was transformed into a fus3/kss1 double deletion mutant of S. cerevisiae. The results show that the STK2
complementary strain clearly formed pseudohyphae and ascospores, and the strain grew on the surface of the medium after
rinsing with sterile water and the characteristics of the complementary strain was the same as the wild-type strain. Moreover,
STK2 complemented the function of KSS1 in filamentation and invasive growth, as well as the mating behavior of FUS3 in
S. cerevisiae, however, its exact functions in S. turcica will be studied in the future research.
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