Genome-Wide Identification and Expression Analysis of JAZ Family Involved in Hormone and Abiotic Stress in Sweet Potato and Its Two Diploid Relatives

Jasmonate ZIM-domain (JAZ) proteins are key repressors of a jasmonic acid signaling pathway. They play essential roles in the regulation of plant growth and development, as well as environmental stress responses. However, this gene family has not been explored in sweet potato. In this study, we identified 14, 15, and 14 JAZs in cultivated hexaploid sweet potato (Ipomoea batatas, 2n = 6x = 90), and its two diploid relatives Ipomoea trifida (2n = 2x = 30) and Ipomoea triloba (2n = 2x = 30), respectively. These JAZs were divided into five subgroups according to their phylogenetic relationships with Arabidopsis. The protein physiological properties, chromosome localization, phylogenetic relationship, gene structure, promoter cis-elements, protein interaction network, and expression pattern of these 43 JAZs were systematically investigated. The results suggested that there was a differentiation between homologous JAZs, and each JAZ gene played different vital roles in growth and development, hormone crosstalk, and abiotic stress response between sweet potato and its two diploid relatives. Our work provided comprehensive comparison and understanding of the JAZ genes in sweet potato and its two diploid relatives, supplied a theoretical foundation for their functional study, and further facilitated the molecular breeding of sweet potato.

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An abscisic acid-responsive protein interaction network for sucrose non-fermenting related kinase1 in abiotic stress response

Communications Biology ◽

10.1038/s42003-020-0866-8 ◽

2020 ◽

Vol 3 (1) ◽

Cited By ~ 1

Author(s):

Carina Steliana Carianopol ◽

Aaron Lorheed Chan ◽

Shaowei Dong ◽

Nicholas J. Provart ◽

Shelley Lumba ◽

...

Keyword(s):

Abscisic Acid ◽

Abiotic Stress ◽

Stress Response ◽

Stress Responses ◽

Energy Homeostasis ◽

Plant Stress ◽

Interaction Network ◽

Abiotic Stress Response ◽

Functional Studies ◽

Transcriptional Changes

AbstractYeast Snf1 (Sucrose non-fermenting1), mammalian AMPK (5′ AMP-activated protein kinase) and plant SnRK1 (Snf1-Related Kinase1) are conserved heterotrimeric kinase complexes that re-establish energy homeostasis following stress. The hormone abscisic acid (ABA) plays a crucial role in plant stress response. Activation of SnRK1 or ABA signaling results in overlapping transcriptional changes, suggesting these stress pathways share common targets. To investigate how SnRK1 and ABA interact during stress response in Arabidopsis thaliana, we screened the SnRK1 complex by yeast two-hybrid against a library of proteins encoded by 258 ABA-regulated genes. Here, we identify 125 SnRK1- interacting proteins (SnIPs). Network analysis indicates that a subset of SnIPs form signaling modules in response to abiotic stress. Functional studies show the involvement of SnRK1 and select SnIPs in abiotic stress responses. This targeted study uncovers the largest set of SnRK1 interactors, which can be used to further characterize SnRK1 role in plant survival under stress.

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Identification and expression analysis of GRAS transcription factors in the wild relative of sweet potato Ipomoea trifida

BMC Genomics ◽

10.1186/s12864-019-6316-7 ◽

2019 ◽

Vol 20 (1) ◽

Cited By ~ 5

Author(s):

Yao Chen ◽

Panpan Zhu ◽

Shaoyuan Wu ◽

Yan Lu ◽

Jian Sun ◽

...

Keyword(s):

Sweet Potato ◽

Stress Responses ◽

Expression Profiles ◽

Expression Patterns ◽

Raw Material ◽

Functional Study ◽

Ipomoea Trifida ◽

Specific Expression ◽

Adverse Environmental Condition ◽

In The Wild

Abstract Background GRAS gene is an important transcription factor gene family that plays a crucial role in plant growth, development, adaptation to adverse environmental condition. Sweet potato is an important food, vegetable, industrial raw material, and biofuel crop in the world, which plays an essential role in food security in China. However, the function of sweet potato GRAS genes remains unknown. Results In this study, we identified and characterised 70 GRAS members from Ipomoea trifida, which is the progenitor of sweet potato. The chromosome distribution, phylogenetic tree, exon-intron structure and expression profiles were analysed. The distribution map showed that GRAS genes were randomly located in 15 chromosomes. In combination with phylogenetic analysis and previous reports in Arabidopsis and rice, the GRAS proteins from I. trifida were divided into 11 subfamilies. Gene structure showed that most of the GRAS genes in I. trifida lacked introns. The tissue-specific expression patterns and the patterns under abiotic stresses of ItfGRAS genes were investigated via RNA-seq and further tested by RT-qPCR. Results indicated the potential functions of ItfGRAS during plant development and stress responses. Conclusions Our findings will further facilitate the functional study of GRAS gene and molecular breeding of sweet potato.

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PROTOPLAST ISOLATION AND CULTURE OF SOME IPOMOEA SPECIES IN THE SECTION BATATAS.

HortScience ◽

10.21273/hortsci.25.9.1155f ◽

1990 ◽

Vol 25 (9) ◽

pp. 1155f-1155

Keyword(s):

Sweet Potato ◽

Ipomoea Batatas ◽

World Wide ◽

Protoplast Isolation ◽

Cellular Level ◽

Ipomoea Trifida ◽

Centers Of Origin ◽

Tuber Production ◽

Ipomoea Triloba ◽

Ipomoea Species

Sweet potato (Ipomoea batatas L. Lam) ranks second in world wide root and tuber production. Loss of genetic resources in the primary centers of origin have been occurring for a number of years. Utilization of the genetic diversity of wild types and related species cart expand breeding potential and efficiency. Two species, Ipomoea trifida and Ipomoea triloba, have been identified as possible progenitor species or sweet potato. Plant improvement at the cellular level using protoplasts is a novel alternative to conventional breeding practices. Protoplast plating efficiency appears to be genotype dependent. Roots have been regenerated from Ipomoea trifida protoplasm calli on Murashige and Skoog's medium containing zeatin or kinetin.

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Genome-wide analysis of the apple CaCA superfamily reveals that MdCAX proteins are involved in the abiotic stress response as calcium transporters

BMC Plant Biology ◽

10.1186/s12870-021-02866-1 ◽

2021 ◽

Vol 21 (1) ◽

Author(s):

Ke Mao ◽

Jie Yang ◽

Min Wang ◽

Huayu Liu ◽

Xin Guo ◽

...

Keyword(s):

Abiotic Stress ◽

Stress Response ◽

Plant Species ◽

Stress Responses ◽

Calcium Transport ◽

Sequence Similarity ◽

Structural Basis ◽

Functional Study ◽

Transport Capacity ◽

Abiotic Stress Response

Abstract Background Calcium (Ca2+) plays an important role in plant growth and development, and the maintenance of calcium homeostasis is necessary for the survival of all plant species. Ca2+/H+ exchangers (CAXs) are a subgroup of the CaCA (Ca2+/cation antiporter) superfamily. In general, CAX proteins mediate cytosolic Ca2+ entry into vacuoles to prevent excessive accumulation of Ca2+ in the cytosol. The CaCA superfamily has been identified and characterised in many plant species; however, characterisation of the CaCA superfamily and functional study of apple CAX proteins have yet to be conducted in apple (Malus × domestica Borkh.). Results Here, we identified 21 CaCA family proteins in apple for the first time. Phylogenetic and gene structure analysis, as well as prediction of conserved motifs, suggested that these proteins could be classified into four groups: CAX, CCX, NCL, and MHX. Expression analysis showed that the 10 MdCAX genes we cloned strongly responded to calcium and abiotic stress treatments. Collinearity analysis and characterisation of calcium transport capacity resulted in the identification of a pair of segmental duplication genes: MdCAX3L-1 and MdCAX3L-2; MdCAX3L-2 showed strong calcium transport capacity, whereas MdCAX3L-1 showed no calcium transport capacity. Yeast two-hybrid (Y2H) assays showed that these two proteins could interact with each other. The high sequence similarity (94.6%) makes them a good model for studying the crucial residues and structural basis of the calcium transport of CAX proteins. Prediction of the protein interaction network revealed several proteins that may interact with CAX proteins and play important roles in plant stress responses, such as SOS2, CXIP1, MHX, NRAMP3, and MTP8. Conclusions Our analysis indicated that MdCAX proteins have strong calcium transport capacity and are involved in the abiotic stress response in apple. These findings provide new insight and rich resources for future studies of MdCAX proteins in apple.

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Genome-Wide Analysis of Poplar SQUAMOSA-Promoter-Binding Protein (SBP) Family under Salt Stress

Forests ◽

10.3390/f12040413 ◽

2021 ◽

Vol 12 (4) ◽

pp. 413

Author(s):

Qing Guo ◽

Li Li ◽

Kai Zhao ◽

Wenjing Yao ◽

Zihan Cheng ◽

...

Keyword(s):

Salt Stress ◽

Abiotic Stress ◽

Stress Responses ◽

Growth And Development ◽

Binding Protein ◽

Gene Segment ◽

Gene Expression Pattern ◽

Genome Wide Analysis ◽

Genome Wide ◽

Squamosa Promoter Binding Protein

SQUAMOSA promoter binding protein (SBP) is a kind of plant-specific transcription factor, which plays a crucial role in stress responses and plant growth and development by activating and inhibiting the transcription of multiple target genes. In this study, a total of 30 SBP genes were identified from Populus trichocarpa genome and randomly distributed on 16 chromosomes in poplar. According to phylogenetic analysis, the PtSBPs can be divided into six categories, and 14 out of the genes belong to VI. Furthermore, the SBP genes in VI were proved to have a targeting relationship with miR156. The homeopathic element analysis showed that the promoters of poplar SBP genes mainly contain the elements involved in growth and development, abiotic stress and hormone response. In addition, there existed 10 gene segment duplication events in the SBP gene duplication analysis. Furthermore, there were four poplar and Arabidopsis orthologous gene pairs among the poplar SBP members. What is more, poplar SBP gene family has diverse gene expression pattern under salt stress. As many as nine SBP members were responding to high salt stress and six members possibly participated in growth development and abiotic stress. Yeast two-hybrid experiments indicated that PtSBPs can form heterodimers to interact in the transcriptional regulatory networks. The genome-wide analysis of poplar SBP family will contribute to function characterization of SBP genes in woody plants.

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A Novel WRKY Transcription Factor from Ipomoea trifida, ItfWRKY70, Confers Drought Tolerance in Sweet Potato

International Journal of Molecular Sciences ◽

10.3390/ijms23020686 ◽

2022 ◽

Vol 23 (2) ◽

pp. 686

Author(s):

Sifan Sun ◽

Xu Li ◽

Shaopei Gao ◽

Nan Nie ◽

Huan Zhang ◽

...

Keyword(s):

Drought Stress ◽

Transgenic Plants ◽

Drought Tolerance ◽

Sweet Potato ◽

Stress Responses ◽

Leaf Tissue ◽

Stomatal Aperture ◽

Ros Scavenging ◽

Ipomoea Trifida ◽

Positive Role

WRKY transcription factors are one of the important families in plants, and have important roles in plant growth, abiotic stress responses, and defense regulation. In this study, we isolated a WRKY gene, ItfWRKY70, from the wild relative of sweet potato Ipomoea trifida (H.B.K.) G. Don. This gene was highly expressed in leaf tissue and strongly induced by 20% PEG6000 and 100 μM abscisic acid (ABA). Subcellar localization analyses indicated that ItfWRKY70 was localized in the nucleus. Overexpression of ItfWRKY70 significantly increased drought tolerance in transgenic sweet potato plants. The content of ABA and proline, and the activity of SOD and POD were significantly increased, whereas the content of malondialdehyde (MDA) and H2O2 were decreased in transgenic plants under drought stress. Overexpression of ItfWRKY70 up-regulated the genes involved in ABA biosynthesis, stress-response, ROS-scavenging system, and stomatal aperture in transgenic plants under drought stress. Taken together, these results demonstrated that ItfWRKY70 plays a positive role in drought tolerance by accumulating the content of ABA, regulating stomatal aperture and activating the ROS scavenging system in sweet potato.

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The Construction of Plant Expression Vector harbouring Carica Papaya L. WRKY Gene in Escherichia coli

Pertanika Journal of Science and Technology ◽

10.47836/pjst.28.s2.04 ◽

2020 ◽

Vol 28 (S2) ◽

Author(s):

Fauziah Abu Bakar ◽

Pavitra Paramalingam ◽

Kamariah Hasan

Keyword(s):

Abiotic Stress ◽

Stress Responses ◽

Expression Vector ◽

Carica Papaya ◽

Sequencing Analysis ◽

Wrky Gene ◽

Limited Information ◽

Abiotic Stress Response ◽

Plant Expression ◽

Plant Expression Vector

Carica papaya is a well-liked and economically important fruit with outstanding nutritional and medicinal values. Its susceptibility to abiotic stress which affects the growth and harvest, causes significant yield loss to farmers. In recent years, significant progress has been made to understand the genes that play critical roles in abiotic stress response, especially some transcription factor (TF) encoding genes. Among all TFs, WRKY TF gene family is one of the best-studied TFs involved in various stress responses. To date, only limited information on functionally characterised WRKY TFs is available for C. papaya. The aim of this study was to produce a recombinant construct harbouring WRKY gene in pGEM®-T Easy cloning vector. The presence of a DNA band of the expected size of 465 bp on agarose gel electrophoresis indicated that WRKY gene was successfully amplified from all treated samples. DNA sequencing analysis revealed that the amplified sequence isolated from the treated samples were closely related to Carica papaya species with 97% similarity. Following transformation, 4 out of 5 colonies that were randomly selected showed the WRKY gene had been successfully inserted into pGEM®-T Easy vector and transformed into E. coli. In future, the WRKY gene from pGEMT-WRKY recombinant construct will be cloned into the plant expression vector pCAMBIA 1304 prior to transformation in the plant. The success of demonstrating the WRKY gene towards the response in abiotic stress will enable us to produce stress tolerant transgenic crops under unfavourable conditions via genetic engineering for sustained growth.

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Genome-wide characterization of NtHD-ZIP IV: different roles in abiotic stress response and glandular Trichome induction

BMC Plant Biology ◽

10.1186/s12870-019-2023-4 ◽

2019 ◽

Vol 19 (1) ◽

Author(s):

Hongying Zhang ◽

Xudong Ma ◽

Wenjiao Li ◽

Dexin Niu ◽

Zhaojun Wang ◽

...

Keyword(s):

Abiotic Stress ◽

Stress Response ◽

Stress Responses ◽

Leucine Zipper ◽

Regulatory Gene ◽

Glandular Trichomes ◽

Glandular Trichome ◽

Tissue Expression ◽

Abiotic Stress Response ◽

Epidermal Development

Abstract Background The plant-specific homeodomain-leucine zipper class IV (HD-ZIP IV) gene family has been involved in the regulation of epidermal development. Results Fifteen genes coding for HD-ZIP IV proteins were identified (NtHD-ZIP-IV-1 to NtHD-ZIP-IV-15) based on the genome of N. tabacum. Four major domains (HD, ZIP, SAD and START) were present in these proteins. Tissue expression pattern analysis indicated that NtHD-ZIP-IV-1, − 2, − 3, − 10, and − 12 may be associated with trichome development; NtHD-ZIP-IV-8 was expressed only in cotyledons; NtHD-ZIP-IV-9 only in the leaf and stem epidermis; NtHD-ZIP-IV-11 only in leaves; and NtHD-ZIP-IV-15 only in the root and stem epidermis. We found that jasmonates may induce the generation of glandular trichomes, and that NtHD-ZIP-IV-1, − 2, − 5, and − 7 were response to MeJA treatment. Dynamic expression under abiotic stress and after application of phytohormones indicated that most NtHD-ZIP IV genes were induced by heat, cold, salt and drought. Furthermore, most of these genes were induced by gibberellic acid, 6-benzylaminopurine, and salicylic acid, but were inhibited by abscisic acid. NtHD-ZIP IV genes were sensitive to heat, but insensitive to osmotic stress. Conclusion NtHD-ZIP IV genes are implicated in a complex regulatory gene network controlling epidermal development and abiotic stress responses. The present study provides evidence to elucidate the gene functions of NtHD-ZIP IVs during epidermal development and stress response.

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Use of Ipomoea trifida (HBK.) G. Don germ plasm for sweet-potato improvement. 2. Fertility of synthetic hexaploids and triploids with 2n gametes of I. trifida, and their interspecific crossability with sweet potato

Genome ◽

10.1139/g91-033 ◽

1991 ◽

Vol 34 (2) ◽

pp. 209-214 ◽

Cited By ~ 17

Author(s):

Rosanna Freyre ◽

Masaru Iwanaga ◽

Gisella Orjeda

Keyword(s):

Sweet Potato ◽

Egg Production ◽

Ipomoea Batatas ◽

2N Gametes ◽

Pollen Production ◽

2N Pollen ◽

Ipomoea Trifida ◽

Potato Improvement ◽

Synthetic Hexaploids ◽

Interspecific Crossability

Twenty-two synthetic hexaploids and 33 triploids with 2n pollen production of Ipomoea trifida were used in crosses to estimate their male and female fertility and their crossability with sweet potato, Ipomoea batatas (L.) Lam. Several important conclusions were drawn. (i) The fertility of pollen of the triploid plants was confirmed, which suggested they are truly functional 2n pollen. (ii) The average male fertility of hexaploid plants was higher than that of triploid with 2n pollen production plants. (iii) 2n egg production was observed in several triploid genotypes, (iv) From a polycross, 3079 seeds with normal shapes were produced. These represent a population of hexaploid I. trifida with a wide genetic base, and they may be important material for sweet-potato improvement, (v) A total of 3275 seeds were obtained from crosses with six sweet-potato female parents, of which only 60 germinated, indicating the existence of an interspecific barrier. The implications of 2n gametes for breeding and evolution of sweet potato are also discussed.Key words: Ipomoea batatas, Ipomoea trifida, 2n gametes, sexual polyploidization, triploid.

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A comprehensive analysis of cotton VQ gene superfamily reveals their potential and extensive roles in regulating cotton abiotic stress

10.21203/rs.3.rs-38226/v1 ◽

2020 ◽

Author(s):

Shuxun Yu ◽

Pengyun Chen ◽

Fei wei ◽

Shuaishuai Cheng ◽

Liang Ma ◽

...

Keyword(s):

Abiotic Stress ◽

Stress Responses ◽

Expression Patterns ◽

Regulatory Elements ◽

Abiotic Stress Response ◽

Salt And Drought Stress ◽

Solid Foundation ◽

Underlying Mechanisms ◽

Peg Stress ◽

Insight Into

Abstract Background Valine-glutamine (VQ) motif-containing proteins play important roles in plant growth, development and abiotic stress response. For many plant species, the VQ genes have been identified and their functions have been described. However, little is known about the origin, evolution, and functions (and underlying mechanisms) of the VQ family genes in cotton. Results In this study, we comprehensively analyzed the characteristics of 268 VQ genes from four Gossypium genomes and found that the VQ proteins evolved into ten clades, and each clade had a similar structural and conservative motif. The expansion of the VQ gene was mainly through segmental duplication, followed by dispersal. Expression analysis revealed that the VQ genes play important roles in response to salt and drought stress, especially GhVQ18 and GhVQ84 were significantly high expression in PEG stress and salt stress. Further analysis showed that GhVQ genes were co-expressed with GhWRKY transcription factors (TFs), and microRNAs (miRNAs) could hybridize to their cis-regulatory elements. Conclusions The results in this study broaden our understanding of the VQ gene family in plants, and the analysis of the structure, conserved elements, and expression patterns of the VQ genes provide a solid foundation for exploring their specific functions in the abiotic stress responses in cotton. Our study provides significant insight into the potential functions of VQ genes in cotton.

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