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You searched for: Journal name plant journal Remove constraint Journal name: plant journal Publication year rev 7978-2022 Remove constraint Publication year rev: 7978-2022 Source 2022 v.111 no.5 Remove constraint Source: 2022 v.111 no.5
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1. Adaptation to a new environment with pre‐adaptive genomic features – Evidence from woody plants colonizing the land–sea interface

Author:
Zixiao Guo; Shaohua Xu; Wei Xie; Shao Shao; Xiao Feng; Ziwen He; Cairong Zhong; Kaichi Huang; Chung‐I Wu; Suhua Shi
Source:
plant journal 2022 v.111 no.5 pp. 1411-1424
ISSN:
0960-7412
Subject:
Xylocarpus granatum; ancestry; genome; genomics; habitats; littoral zone; salt tolerance
Abstract:
... Adaptation to new environments is a key evolutionary process which presumably involves complex genomic changes. Mangroves, a collection of approximately 80 woody plants that have independently invaded intertidal zones >20 times, are ideal for studying this process. We assembled near‐chromosome‐scale genomes of three Xylocarpus species as well as an outgroup species using single‐molecule real‐time ...
DOI:
10.1111/tpj.15899

2. Co‐expression of transcription factors ZmC1 and ZmR2 establishes an efficient and accurate haploid embryo identification system in maize

Author:
Chen Chen; Xiaoqing Liu; Suzhen Li; Chenxu Liu; Yuling Zhang; Lili Luo; Liqing Miao; Wenzhu Yang; Zijian Xiao; Yu Zhong; Jiansheng Li; Rumei Chen; Shaojiang Chen
Source:
plant journal 2022 v.111 no.5 pp. 1296-1307
ISSN:
0960-7412
Subject:
Zea mays; aleurone layer; anthocyanins; biosynthesis; chromosomes; coleoptiles; corn; diploidy; doubled haploids; genetic background; germplasm; haploidy; pollination; promoter regions; seed development; transcription factors; transgenes
Abstract:
... Because of their high efficiency during chromosome doubling, immature haploid maize (Zea mays L.) embryos are useful for doubled haploid production. The R1‐nj marker is commonly used in doubled haploid breeding and has improved the efficiency of haploid identification. However, its effectiveness is limited by genetic background and environmental factors. We addressed this technical challenge by de ...
DOI:
10.1111/tpj.15888

3. Effects of homoeologous exchange on gene expression and alternative splicing in a newly formed allotetraploid wheat

Author:
Zhibin Zhang; Hongwei Xun; Ruili Lv; Xiaowan Gou; Xintong Ma; Juzuo Li; Jing Zhao; Ning Li; Lei Gong; Bao Liu
Source:
plant journal 2022 v.111 no.5 pp. 1267-1282
ISSN:
0960-7412
Subject:
allotetraploidy; dose response; gene expression; genes; genetic variation; high-throughput nucleotide sequencing; wheat
Abstract:
... Homoeologous exchange (HE) is a major mechanism generating post‐polyploidization genetic variation with important evolutionary consequences. However, the direct impacts of HE on gene expression and transcript diversity in allopolyploids without the intertwined evolutionary processes remain to be fully understood. Here, we analyzed high‐throughput RNA‐seq data of young leaves from plant groups of a ...
DOI:
10.1111/tpj.15886

4. Haplotype‐resolved genome assembly of Bletilla striata (Thunb.) Reichb.f. to elucidate medicinal value

Author:
Lan Jiang; Mengfei Lin; Han Wang; Hui Song; Lin Zhang; Qingyu Huang; Renrui Chen; Cheng Song; Guohui Li; Yunpeng Cao
Source:
plant journal 2022 v.111 no.5 pp. 1340-1353
ISSN:
0960-7412
Subject:
Bletilla striata; Lipotes vexillifer; Oriental traditional medicine; biosynthesis; chromosomes; economic valuation; evolution; genes; genome assembly; genomics; haplotypes; karyotyping; polysaccharides; secondary metabolites; transcription factors; transcriptomics; two hybrid system techniques
Abstract:
... Bletilla striata, commonly known as baiji, is a species used in traditional Chinese medicine; it is highly regarded for its medicinal applications and therefore has high economic value. Here, we report a high‐quality haplotype‐resolved genome of B. striata, haplotype A (2.37 Gb, with a scaffold N50 of 146.39 Mb and a contig N50 of 1.65 Mb) and haplotype B (2.43 Gb, with a scaffold N50 of 150.22 Mb ...
DOI:
10.1111/tpj.15892

5. Lateral transfers lead to the birth of momilactone biosynthetic gene clusters in grass

Author:
Dongya Wu; Yiyu Hu; Shota Akashi; Hideaki Nojiri; Longbiao Guo; Chu‐Yu Ye; Qian‐Hao Zhu; Kazunori Okada; Longjiang Fan
Source:
plant journal 2022 v.111 no.5 pp. 1354-1367
ISSN:
0960-7412
Subject:
Echinochloa crus-galli; Oryza; allelopathy; biosynthesis; diterpenoids; gene duplication; genes; genomics; grasses; horizontal gene transfer; pathogens; phylogeny; phytoalexins; rice
Abstract:
... Momilactone A, an important plant labdane‐related diterpenoid, functions as a phytoalexin against pathogens and an allelochemical against neighboring plants. The genes involved in the biosynthesis of momilactone A are found in clusters, i.e., momilactone A biosynthetic gene clusters (MABGCs), in the rice and barnyardgrass genomes. In addition, we know little about the origin and evolution of MABGC ...
DOI:
10.1111/tpj.15893

6. Orthology‐based analysis helps map evolutionary diversification and predict substrate class use of BAHD acyltransferases

Author:
Lars H. Kruse; Austin T. Weigle; Mohammad Irfan; Jesús Martínez‐Gómez; Jason D. Chobirko; Jason E. Schaffer; Alexandra A. Bennett; Chelsea D. Specht; Joseph M. Jez; Diwakar Shukla; Gaurav D. Moghe
Source:
plant journal 2022 v.111 no.5 pp. 1453-1468
ISSN:
0960-7412
Subject:
Angiospermae; acylation; acyltransferases; anthocyanins; biosynthesis; diploidy; epicuticular wax; evolution; functional diversity; genome; lignin; models; prediction; site-directed mutagenesis; tomatoes
Abstract:
... Large enzyme families catalyze metabolic diversification by virtue of their ability to use diverse chemical scaffolds. How enzyme families attain such functional diversity is not clear. Furthermore, duplication and promiscuity in such enzyme families limits their functional prediction, which has produced a burgeoning set of incompletely annotated genes in plant genomes. Here, we address these chal ...
DOI:
10.1111/tpj.15902

7. Spruce giga‐genomes: structurally similar yet distinctive with differentially expanding gene families and rapidly evolving genes

Author:
Kristina K. Gagalova; René L. Warren; Lauren Coombe; Johnathan Wong; Ka Ming Nip; Macaire Man Saint Yuen; Justin G. A. Whitehill; Jose M. Celedon; Carol Ritland; Greg A. Taylor; Dean Cheng; Patrick Plettner; S. Austin Hammond; Hamid Mohamadi; Yongjun Zhao; Richard A. Moore; Andrew J. Mungall; Brian Boyle; Jérôme Laroche; Joan Cottrell; John J. Mackay; Manuel Lamothe; Sébastien Gérardi; Nathalie Isabel; Nathalie Pavy; Steven J. M. Jones; Joerg Bohlmann; Jean Bousquet; Inanc Birol
Source:
plant journal 2022 v.111 no.5 pp. 1469-1485
ISSN:
0960-7412
Subject:
Picea engelmannii; Picea glauca; Picea sitchensis; carbon sequestration; chromosome mapping; conifers; divergent evolution; ecology; genes; genetic variation; genomics; mountains; phylogeny; stress response; topology
Abstract:
... Spruces (Picea spp.) are coniferous trees widespread in boreal and mountainous forests of the northern hemisphere, with large economic significance and enormous contributions to global carbon sequestration. Spruces harbor very large genomes with high repetitiveness, hampering their comparative analysis. Here, we present and compare the genomes of four different North American spruces: the genome a ...
DOI:
10.1111/tpj.15889

8. THIAMIN REQUIRING2 is involved in thiamin diphosphate biosynthesis and homeostasis

Author:
Wei‐Yu Hsieh; Hsin‐Mei Wang; Yi‐Hsin Chung; Kim‐Teng Lee; Hong‐Sheng Liao; Ming‐Hsiun Hsieh
Source:
plant journal 2022 v.111 no.5 pp. 1383-1396
ISSN:
0960-7412
Subject:
Arabidopsis; biochemical pathways; biosynthesis; chloroplasts; cytosol; homeostasis; mitochondria; models; mutants; peptides; thiamin
Abstract:
... The THIAMIN REQUIRING2 (TH2) protein comprising a mitochondrial targeting peptide followed by a transcription enhancement A and a haloacid dehalogenase domain is a thiamin monophosphate (TMP) phosphatase in the vitamin B1 biosynthetic pathway. The Arabidopsis th2‐3 T‐DNA insertion mutant was chlorotic and deficient in thiamin diphosphate (TDP). Complementation assays confirmed that haloacid dehalo ...
DOI:
10.1111/tpj.15895

9. Towards smart and sustainable development of modern berry cultivars in Europe

Author:
Elisa Senger; Sonia Osorio; Klaus Olbricht; Paul Shaw; Béatrice Denoyes; Jahn Davik; Stefano Predieri; Saila Karhu; Sebastian Raubach; Nico Lippi; Monika Höfer; Helen Cockerton; Christophe Pradal; Ebru Kafkas; Suzanne Litthauer; Iraida Amaya; Björn Usadel; Bruno Mezzetti
Source:
plant journal 2022 v.111 no.5 pp. 1238-1251
ISSN:
0960-7412
Subject:
blueberries; cultivars; flavor; genetic analysis; genetic markers; genetic variation; human nutrition; image analysis; marker-assisted selection; metadata; odors; raspberries; sensory evaluation; strawberries; sustainable development; taste; Europe
Abstract:
... Fresh berries are a popular and important component of the human diet. The demand for high‐quality berries and sustainable production methods is increasing globally, challenging breeders to develop modern berry cultivars that fulfill all desired characteristics. Since 1994, research projects have characterized genetic resources, developed modern tools for high‐throughput screening, and published d ...
DOI:
10.1111/tpj.15876

10. Wheat photosystem II heat tolerance: evidence for genotype‐by‐environment interactions

Author:
Onoriode Coast; Bradley C. Posch; Bethany G. Rognoni; Helen Bramley; Oorbessy Gaju; John Mackenzie; Claire Pickles; Alison M. Kelly; Meiqin Lu; Yong‐Ling Ruan; Richard Trethowan; Owen K. Atkin
Source:
plant journal 2022 v.111 no.5 pp. 1368-1382
ISSN:
0960-7412
Subject:
carbon dioxide fixation; cultivars; flowering; genetic variance; genetic variation; genotype-environment interaction; heat stress; heat tolerance; heritability; leaves; models; photosystem II; temperature; wheat; Australia
Abstract:
... High temperature stress inhibits photosynthesis and threatens wheat production. One measure of photosynthetic heat tolerance is Tcᵣᵢₜ – the critical temperature at which incipient damage to photosystem II (PSII) occurs. This trait could be improved in wheat by exploiting genetic variation and genotype‐by‐environment interactions (GEI). Flag leaf Tcᵣᵢₜ of 54 wheat genotypes was evaluated in 12 ther ...
DOI:
10.1111/tpj.15894

11. An automated workflow that generates atom mappings for large‐scale metabolic models and its application to Arabidopsis thaliana

Author:
Sebastian Huß; Rika Siedah Judd; Kaan Koper; Hiroshi A. Maeda; Zoran Nikoloski
Source:
plant journal 2022 v.111 no.5 pp. 1486-1500
ISSN:
0960-7412
Subject:
Arabidopsis thaliana; automation; biochemical pathways; databases; isotopes; metabolic flux analysis; metabolites; models; nitrogen; stoichiometry
Abstract:
... Quantification of reaction fluxes of metabolic networks can help us understand how the integration of different metabolic pathways determines cellular functions. Yet, intracellular fluxes cannot be measured directly but are estimated with metabolic flux analysis (MFA), which relies on the patterns of isotope labeling of metabolites in the network. The application of MFA also requires a stoichiomet ...
DOI:
10.1111/tpj.15903

12. An inducible potato (E,E)‐farnesol synthase confers tolerance against bacterial pathogens in potato and tobacco

Author:
Varun Dwivedi; Sarma Rajeev Kumar; H. B. Shilpashree; Ram Krishna; Srinivas Rao; Ajit K. Shasany; Shannon B. Olsson; Dinesh A. Nagegowda
Source:
plant journal 2022 v.111 no.5 pp. 1308-1323
ISSN:
0960-7412
Subject:
Nicotiana tabacum; Pseudomonas syringae; Ralstonia solanacearum; Solanum tuberosum; bacterial growth; biosynthesis; cytosol; genetically modified organisms; genomics; herbivores; methyl jasmonate; phytosterols; potatoes; sesquiterpenoids; terpene synthases; tobacco
Abstract:
... Terpene synthases (TPSs) have diverse biological functions in plants. Though the roles of TPSs in herbivore defense are well established in many plant species, their role in bacterial defense has been scarce and is emerging. Through functional genomics, here we report the in planta role of potato (Solanum tuberosum) terpene synthase (StTPS18) in bacterial defense. Expression of StTPS18 was highest ...
DOI:
10.1111/tpj.15890

13. A seed‐specific transcription factor, HSFA9, anticipates UV‐B light responses by mimicking the activation of the UV‐B receptor in tobacco

Author:
Raúl Carranco; Pilar Prieto‐Dapena; Concepción Almoguera; Juan Jordano
Source:
plant journal 2022 v.111 no.5 pp. 1439-1452
ISSN:
0960-7412
Subject:
Arabidopsis; Helianthus annuus; Nicotiana benthamiana; Nicotiana tabacum; drought tolerance; genetically modified organisms; heat shock proteins; lighting; longevity; photomorphogenesis; physiological transport; plant establishment; precipitin tests; proteolysis; radiation resistance; seed maturation; seedlings; tobacco; transcription factors; ubiquitin-protein ligase; ultraviolet radiation
Abstract:
... Sunflower heat shock factor A9 (HSFA9, hereafter A9) is a transcription factor involved in seed desiccation tolerance and longevity. A9 also links the regulation of seed maturation with that of seedling photomorphogenesis through visible light receptors. Analyses in transgenic Nicotiana tabacum (tobacco) indicated that A9 also affects responses mediated by NtUVR8, the receptor of ultraviolet light ...
DOI:
10.1111/tpj.15901

14. The ubiquitin–26S proteasome system and autophagy relay proteome homeostasis regulation during silique development

Author:
Peifeng Yu; Zhihua Hua
Source:
plant journal 2022 v.111 no.5 pp. 1324-1339
ISSN:
0960-7412
Subject:
Arabidopsis thaliana; autophagy; embryogenesis; homeostasis; proteasome endopeptidase complex; protein content; proteome; seed development; siliques; transcription (genetics)
Abstract:
... Functional studies of the ubiquitin–26S proteasome system (UPS) have demonstrated that virtually all aspects of the plant's life involve UPS‐mediated turnover of abnormal or short‐lived proteins. However, the role of the UPS during development, including in seeds and fruits, remains to be determined in detail, although mutants of several of its core elements are known to be embryonically lethal. U ...
DOI:
10.1111/tpj.15891

15. Genomic regions associate with major axes of variation driven by gas exchange and leaf construction traits in cultivated sunflower (Helianthus annuus L.)

Author:
Ashley M. Earley; Andries A. Temme; Christopher R. Cotter; John M. Burke
Source:
plant journal 2022 v.111 no.5 pp. 1425-1438
ISSN:
0960-7412
Subject:
Helianthus annuus; drought; drought tolerance; gas exchange; genomics; leaf anatomy; transpiration
Abstract:
... Stomata and leaf veins play an essential role in transpiration and the movement of water throughout leaves. These traits are thus thought to play a key role in the adaptation of plants to drought and a better understanding of the genetic basis of their variation and coordination could inform efforts to improve drought tolerance. Here, we explore patterns of variation and covariation in leaf anatom ...
DOI:
10.1111/tpj.15900

16. Reduction of bundle sheath size boosts cyclic electron flow in C4 Setaria viridis acclimated to low light

Author:
Chandra Bellasio; Maria Ermakova
Source:
plant journal 2022 v.111 no.5 pp. 1223-1237
ISSN:
0960-7412
Subject:
Setaria viridis; acclimation; carbon dioxide; carbon metabolism; decarboxylation; electron transfer; gas exchange; mesophyll; models; photons; photorespiration; shade tolerance
Abstract:
... When C₄ leaves are exposed to low light, the CO₂ concentration in the bundle sheath (BS) cells decreases, causing an increase in photorespiration relative to assimilation, and a consequent reduction in biochemical efficiency. These effects can be mitigated by complex acclimation syndromes, which are of primary importance for crop productivity but are not well studied. We unveil an acclimation stra ...
DOI:
10.1111/tpj.15915

17. Widespread and transgenerational retrotransposon activation in inter‐ and intraspecies recombinant inbred populations of Lotus japonicus

Author:
Eigo Fukai; Manabu Yoshikawa; Niraj Shah; Niels Sandal; Akio Miyao; Seijiro Ono; Hideki Hirakawa; Turgut Yigit Akyol; Yosuke Umehara; Ken‐Ichi Nonomura; Jens Stougaard; Hirohiko Hirochika; Makoto Hayashi; Shusei Sato; Stig Uggerhøj Andersen; Keiichi Okazaki
Source:
plant journal 2022 v.111 no.5 pp. 1397-1410
ISSN:
0960-7412
Subject:
Lotus corniculatus var. japonicus; epigenetics; eukaryotic cells; genome; hybridization; inbred lines; plant reproduction; progeny; retrotransposons; terminal repeat sequences
Abstract:
... Transposable elements (TEs) constitute a large proportion of genomes of multicellular eukaryotes, including flowering plants. TEs are normally maintained in a silenced state and their transpositions rarely occur. Hybridization between distant species has been regarded as a ‘shock’ that stimulates genome reorganization, including TE mobilization. However, whether crosses between genetically close p ...
DOI:
10.1111/tpj.15896

18. The methyl‐CpG‐binding domain family member PEM1 is essential for Ubisch body formation and pollen exine development in rice

Author:
Yunyun Song; Yongyan Tang; Lingtong Liu; Yunyuan Xu; Tai Wang
Source:
plant journal 2022 v.111 no.5 pp. 1283-1295
ISSN:
0960-7412
Subject:
DNA-binding domains; biosynthesis; cutin; lipidomics; mutants; mutation; nexine; phenotype; pollen; pollen viability; rice; sporopollenin; transcription (genetics)
Abstract:
... Pollen exine is composed of finely‐organized nexine, bacula and tectum, and is crucial for pollen viability and function. Pollen exine development involves a complicated molecular network that coordinates the interaction between pollen and tapetal cells, as well as the biosynthesis, transport and assembly of sporopollenin precursors; however, our understanding of this network is very limited. Here ...
DOI:
10.1111/tpj.15887

19. A pan‐genome and chromosome‐length reference genome of narrow‐leafed lupin (Lupinus angustifolius) reveals genomic diversity and insights into key industry and biological traits

Author:
Gagan Garg; Lars G. Kamphuis; Philipp E. Bayer; Parwinder Kaur; Olga Dudchenko; Candy M. Taylor; Karen M. Frick; Rhonda C. Foley; Ling‐Ling Gao; Erez Lieberman Aiden; David Edwards; Karam B. Singh
Source:
plant journal 2022 v.111 no.5 pp. 1252-1266
ISSN:
0960-7412
Subject:
Glycine max; Lupinus albus; Lupinus angustifolius; RNA; alkaloids; crop rotation; cultivars; data collection; disease resistance; food composition; foods; genetic variation; genomics; industry; protein content; protein sources; regulator genes; soybeans
Abstract:
... Narrow‐leafed lupin (NLL; Lupinus angustifolius) is a key rotational crop for sustainable farming systems, whose grain is high in protein content. It is a gluten‐free, non‐genetically modified, alternative protein source to soybean (Glycine max) and as such has gained interest as a human food ingredient. Here, we present a chromosome‐length reference genome for the species and a pan‐genome assembl ...
DOI:
10.1111/tpj.15885