Cold stress strongly hinders plant growth and development. However, the molecular and physiological adaptive mechanisms of cold stress tolerance in plants are not well understood. Plants adopt several morpho-physiological changes to withstand cold stress. Plants have evolved various strategies to cope with cold stress. These strategies included changes in cellular membranes and chloroplast structure, regulating cold signals related to phytohormones and plant growth regulators (ABA, JA, GA, IAA, SA, BR, ET, CTK, and MET), reactive oxygen species (ROS), protein kinases, and inorganic ions. This review summarizes the mechanisms of how plants respond to cold stress, covering four main signal transduction pathways, including the abscisic acid (ABA) signal transduction pathway, Ca²⁺ signal transduction pathway, ROS signal transduction pathway, and mitogen-activated protein kinase (MAPK/MPK) cascade pathway. Some transcription factors, such as AP2/ERF, MYB, WRKY, NAC, and bZIP, not only act as calmodulin-binding proteins during cold perception but can also play important roles in the downstream chilling-signaling pathway. This review also highlights the analysis of those transcription factors such as bHLH, especially bHLH-type transcription factors ICE, and discusses their functions as phytohormone-responsive elements binding proteins in the promoter region under cold stress. In addition, a theoretical framework outlining plant responses to cold stress tolerance has been proposed. This theory aims to guide future research directions and inform agricultural production practices, ultimately enhancing crop resilience to cold stress.

Cytoplasmic male sterility (CMS) is important for large-scale hybrid seed production. Rearrangements in the mitochondrial DNA (mtDNA) for the cotton (Gossypium hirsutum L.) CMS line J4A were responsible for pollen abortion. However, the expression patterns of nuclear genes associated with pollen abortion and the molecular basis of CMS for J4A are unknown, and were the objectives of this study by comparing J4A with the J4B maintainer line. Cytological evaluation of J4A anthers showed that microspore abortion occurs during meiosis preventing pollen development. Changes in enzyme activity of mitochondrial respiratory chain complex IV and mitochondrial respiratory chain complex V and the content of ribosomal protein and ATP during anther abortion were observed for J4A suggesting insufficient synthesis of ATP hindered pollen production. Additionally, levels of sucrose, starch, soluble sugar, and fructose were significantly altered in J4A during the meiosis stage, suggesting reduced sugar metabolism contributed to sterility. Transcriptome and miRNAomics analyses identified 4461 differentially expressed mRNAs (DEGs) and 26 differentially expressed microRNAs (DEMIs). Pathway enrichment analysis indicated that the DEMIs were associated with starch and sugar metabolism. Six deduced target gene regulatory pairs that may participate in CMS were identified, ghi-MIR7484-10/mitogen-activated protein kinase kinase 6 (MAPKK6), ghi-undef-156/agamous-like MADS-box protein AGL19 (AGL19), ghi-MIR171-1-22/SNF1-related protein kinase regulatory subunit gamma-1 and protein trichome birefringence-like 38, and ghi-MIR156-(8/36)/WRKY transcription factor 28 (WRKY28). Overall, a putative CMS mechanism involving mitochondrial dysfunction, the ghi-MIR7484-10/MAPKK6 network, and reduced glucose metabolism was suggested, and ghi-MIR7484-10/MAPKK6 may be related to abnormal microspore meiosis and induction of excessive sucrose accumulation in anthers.

Manipulation of planting density and choice of variety are effective management components in any cropping system that aims to enhance the balance between environmental resource availability and crop requirements. One-time fertilization at first flower with a medium plant stand under late sowing has not yet been attempted. To fill this knowledge gap, changes in leaf structural (stomatal density, stomatal length, stomata width, stomatal pore perimeter, and leaf thickness), leaf gas exchange, and chlorophyll fluorescence attributes of different cotton varieties were made in order to change the planting densities to improve lint yield under a new planting model. A two-year field evaluation was carried out on cotton varieties—V₁ (Zhongmian-16) and V₂ (J-4B)—to examine the effect of changing the planting density (D₁, low, 3 × 10⁴; D₂, moderate, 6 × 10⁴; and D₃, dense, 9 × 10⁴) on cotton lint yield, leaf structure, chlorophyll fluorescence, and leaf gas exchange attribute responses. Across these varieties, J-4B had higher lint yield compared with Zhongmian-16 in both years. Plants at high density had depressed leaf structural traits, net photosynthetic rate, stomatal conductance, intercellular CO₂ uptake, quenching (qP), actual quantum yield of photosystem II (ΦPSII), and maximum quantum yield of PSII (F_v/F_m) in both years. Crops at moderate density had improved leaf gas exchange traits, stomatal density, number of stomata, pore perimeter, length, and width, as well as increased qP, ΦPSII, and F_v/F_m compared with low- and high-density plants. Improvement in leaf structural and functional traits contributed to 15.9%–10.7% and 12.3%–10.5% more boll m⁻², with 20.6%–13.4% and 28.9%–24.1% higher lint yield averaged across both years, respectively, under moderate planting density compared with low and high density. In conclusion, the data underscore the importance of proper agronomic methods for cotton production, and that J-4B and Zhongmian-16 varieties, grown under moderate and lower densities, could be a promising option based on improved lint yield in subtropical regions.

Root architecture plays a fundamental role in crop yield, which is sensitive to nitrogen fertilizer. Although it is well studied that nitrogen fertilizer significantly promotes peanut (Arachis hypogaea L.) growth and yield, less information was available on how its root development responds to nitrogen deficiency. In this study, the growth and development of roots were inhibited, as indicated by the significantly decreased root dry weight and length and the lateral root number, especially under 10 days of nitrogen deficiency treatment. The activities and the expression of the genes related to nitrogen assimilation enzymes including nitrate reductase, glutamine synthetase, glutamate dehydrogenase, and glutamine oxoglutarate aminotransferase and the genes encoding the nitrate transporters were significantly decreased under 10 days of nitrogen deficiency treatment, which may lead to a decrease in nitrate content, as indicated by the significantly decreased nitrogen balance index. Transcriptome sequencing revealed a total of 293 (119 up- and 174 downregulated) and 2271 (1165 up- and 1106 downregulated) differentially expressed genes (DEGs) identified after five and ten days of nitrogen deficiency treatments, respectively. Bioinformatic analysis showed that these DEGs were mainly involved in nitrate transportation and assimilation, phytohormone signal transduction, and the lignin biosynthesis pathway. Furthermore, a putative schematic diagram of nitrogen deficiency inhibiting root growth was established, which gives us a better understanding of nitrogen metabolism in peanut roots and a theoretical basis for improving nitrogen use efficiency.

Cytoplasmic male sterility (CMS) is an important agronomic feature and provides an effective tool for heterosis utilization of crops. This study reports the comparative transcriptomic sketches between a novel allohexaploid cotton progeny CMS line LD6A and its maintainer line LD6B using de novo transcriptome sequencing technology at the pollen abortion stage. A total of 128,901 Unigenes were identified, in which 2007 were upregulated and 11,864 were downregulated. The significantly differentially expressed genes (DEGs) in LD6A show a distant and diverse genetic nature due to their distant hybrid hexaploidy progeny. Further analysis revealed that most of the DEGs participated in the tricarboxylic acid (TCA) cycle, oxidative phosphorylation, histone acetyltransferase activity, sepal development, stigma development, cotyledon development and microsporogenesis. A highly differentially expressed toxic protein, Abrin, was identified in the CMS line LD6A, which can catalyze the inactivation of ribosomes and consequently lead to cell death through the mitochondrial pathway in human cells. Twelve DEGs were selected randomly to validate transcriptome data using quantitative reverse-transcribed PCR (qRT-PCR). This study will contribute to new ideas and foundations related to the molecular mechanism of CMS and the innovation of cotton germplasm resources.

Ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) is a critical protein for photosynthesis. With small subunits, RBCSs catalyze the fixation of CO₂ onto ribulose-1,5-bisphosphate (RuBP). However, the gene characteristics of peanut RBCSs, and the relationship between their expression and peanut growth under nitrogen (N)-deficiency conditions are not yet known. This study targeted the impact of sufficient N (5 mmol/L NO₃⁻) and deficient N (0.1 mmol/L NO₃⁻) on peanut seedlings’ growth, physiology, and molecular aspects. Herein, eight RBCS protein encoding genes were identified in the peanut genome, and their characteristics were described. The leaf areas of Yu Hang Hua 1 (YH1) and An Hua 3 (AH3) were reduced significantly after 10 days while “Pu Ke Hua 18” (PK18) and “Luo Hua 4087” (LH4087) had higher N-deficiency adaptations in the initial N-deficiency stage. The Rubisco carboxylation activities of YH1 and PK18 were significantly increased after 5 days of N-deficiency stress while they decreased under 15 days of N-deficiency conditions. Furthermore, the qRT-PCR results showed that the expressions of AhRBCS 1/5 and AhRBCS2/6 had negative relationships with the morpho-physiological traits of peanut under low-N stress. This study provides the biological information of peanut RBCSs and lays a theoretical foundation for N utilization in crop plants.