Chromosome‐scale de novo genome assembly and annotation of three representative Casuarina species: C. equisetifolia, C. glauca, and C. cunninghamiana

Zhang, Yong; Wei, Yongcheng; Meng, Jianghong; Wang, Yujiao; Nie, Shuang; Zhang, Zeyu; Wang, Huiyuan; Yang, Yongkang; Gao, Yanfeng; Wu, Ji; Li, Tuhe; Liu, Xuqing; Zhang, Hangxiao; Gu, Lianfeng

doi:10.1111/tpj.16201

Cited by 5 publications

(4 citation statements)

References 80 publications

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“…Remarkably, this relationship is estimated to account for as much as 15-25% of global N 2 fixation [47,48]. Both C. glauca and H. rhamnoids could be considered as model species, and the generation of a reference genome for H. rhamnoids in 2022 [49] and an updated version of the C. glauca genome published in 2023 [50] is enabling some progress to be made on elucidating the molecular mechanism of actinorhizal interactions. Frankia bacteria are Gram-positive, branching, filamentous soil bacteria [51], many of which have the ability to form a symbiosis with actinorhizal plants [52].…”

Section: Symbiotic Partnerships In Non-rhizobial Nodulesmentioning

confidence: 99%

Plant–Environment Response Pathway Regulation Uncovered by Investigating Non-Typical Legume Symbiosis and Nodulation

Wilkinson,

Coppock,

Richmond

et al. 2023

Plants

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Nitrogen is an essential element needed for plants to survive, and legumes are well known to recruit rhizobia to fix atmospheric nitrogen. In this widely studied symbiosis, legumes develop specific structures on the roots to host specific symbionts. This review explores alternate nodule structures and their functions outside of the more widely studied legume–rhizobial symbiosis, as well as discussing other unusual aspects of nodulation. This includes actinorhizal-Frankia, cycad-cyanobacteria, and the non-legume Parasponia andersonii-rhizobia symbioses. Nodules are also not restricted to the roots, either, with examples found within stems and leaves. Recent research has shown that legume–rhizobia nodulation brings a great many other benefits, some direct and some indirect. Rhizobial symbiosis can lead to modifications in other pathways, including the priming of defence responses, and to modulated or enhanced resistance to biotic and abiotic stress. With so many avenues to explore, this review discusses recent discoveries and highlights future directions in the study of nodulation.

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Section: Symbiotic Partnerships In Non-rhizobial Nodulesmentioning

confidence: 99%

Plant–Environment Response Pathway Regulation Uncovered by Investigating Non-Typical Legume Symbiosis and Nodulation

Wilkinson,

Coppock,

Richmond

et al. 2023

Plants

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“…Casuarina equisetifolia L. is a very useful tree which is distributed in tropical and subtropical regions. Because of its superior biological characteristics, such as fast growth, wind and salt resistance, and nitrogen fixation, it is widely planted for wood production, paper pulp, shelterbelts along the coastal area, and ecological restoration in the region of high salinity, drought and low nutrient soil [28,29]. However, it is sensitive to cold stress [30].…”

Section: Introductionmentioning

confidence: 99%

“…Leveraging Casuarina's excellent stress resistance properties, it serves as an ideal model to study the molecular mechanisms of abiotic stress responses in plants. With the accomplishment of the C. equisetifolia genome sequence, research focused on understanding the molecular mechanisms of salinity and cold responses has commenced [29][30][31][32]. Nevertheless, the molecular mechanisms underlying its response to abiotic stresses remain insufficiently understood.…”

Section: Introductionmentioning

confidence: 99%

Identification of Stress Responsive NAC Genes in Casuarina equisetifolia L. and Its Expression Analysis under Abiotic Stresses

Li,

Wen

et al. 2024

Agronomy

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NAC (NAM, ATAF and CUC)-like transcription factors, a class of plant-specific transcription factors, play a pivotal role in plant growth, development, metabolism, and stress response. Notably, a specific subclass of NAC family, known as SNAC (stress-responsive NAC), is particularly involved in the plant’s response to abiotic stress. As a very useful tree, Casuarina equisetifolia L. also has excellent stress resistance properties. To explore gene resources of C. equisetifolia which are associated with stress resistance and the molecular mechanisms that it employed is very helpful to its molecular-assisted breeding. In this study, 10 CeSNAC transcription factors were identified by constructing the phylogenetic tree of 94 CeNACs from the genome of C. equisetifolia L. together with 79 SNAC in different plant species. Phylogenetic tree analysis revealed that these 10 CeSNAC genes are classified into the ATAF (Arabidopsis transcription activation factor), NAP (NAC-like, activated by AP3/P1), and AtNAC3 subfamilies of the NAC family, all featuring the typical NAM (no apical meristem) domain, with the exception of CeSNAC7. In addition, all NAC transcription factors, except CeSNAC9, were localized in the nucleus. Examination of the CeSNAC promoter unveiled the presence of stress response elements such as a STRE (stress responsive element), an MBS (MYB binding site), an ABRE (abscisic acid responsive element) and a LTR (low temperature responsive element). Under various stress treatments, the majority of CeSNAC expressions exhibited induction in response to low temperature, drought, and high salt treatments, as well as ABA (abscisic acid) treatment. However, CeSNAC6, CeSNAC7, and CeSNAC9 were found to be inhibited specifically by drought treatment. Additionally, only CeSNAC3 and CeNAC9 expression was hindered while the rest of the CeSNAC expression were induced by MeJA (methyl jasmonate) treatment. These findings shed light on the relationship between different CeSNAC genes and their responses to abiotic stress conditions, providing valuable insights for further research into CeSNAC functions and aiding the development of stress-resistant varieties in C. equisetifolia.

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“…Leaflessness is relatively common among seed plants. In some plants, such as Cactaceae, Euphorbiaceae, and Casuarinaceae, the leaves have degenerated into spines or membranous structures, and photosynthesis is carried out by the stem [1][2][3][4]. In other groups, like the Orobanchaceae, Balanophoraceae, Rafflesiaceae, Cassytha, and Cuscuta, plants obtain nutrients by parasitizing host plants through specialized structures [5][6][7][8].…”

Section: Introductionmentioning

confidence: 99%

The Complete Chloroplast Genome of an Epiphytic Leafless Orchid, Taeniophyllum complanatum: Comparative Analysis and Phylogenetic Relationships

Zhou,

Chen,

Wang

et al. 2024

Horticulturae

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Taeniophyllum is a distinct taxon of epiphytic leafless plants in the subtribe Aeridinae of Orchidaceae. The differences in chloroplast genomes between extremely degraded epiphytic leafless orchids and other leafy orchids, as well as their origins and evolution, raise intriguing questions. Therefore, we report the chloroplast genome sequence of Taeniophyllum complanatum, including an extensive comparative analysis with other types of leafless orchids. The chloroplast genome of T. complanatum exhibited a typical quadripartite structure, and its overall structure and gene content were relatively conserved. The entire chloroplast genome was 141,174 bp in length, making it the smallest known chloroplast genome of leafless epiphytic orchids. It encoded a total of 120 genes, including repetitive genes, comprising 74 protein-coding genes, 38 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. A phylogenetic analysis was conducted on the chloroplast genomes of 43 species belonging to five subfamilies of Orchidaceae. The results showed that the five subfamilies were monophyly, with nearly all segments having a 100% bootstrap value. T. complanatum and Chiloschista were clustered together as a sister group to Phalaenopsis and occupied the highest position in the Epidendroideae. Phylogenetic analysis suggested that T. complanatum and other leafless orchids within the Orchidaceae evolved independently. This study may provide the foundation for research on phylogenetic and structural diversity in leafless epiphytic orchids, thereby enhancing the resources available for chloroplast genome studies in Orchidaceae.

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Chromosome‐scale de novo genome assembly and annotation of three representative Casuarina species: C. equisetifolia, C. glauca, and C. cunninghamiana

Cited by 5 publications

References 80 publications

Plant–Environment Response Pathway Regulation Uncovered by Investigating Non-Typical Legume Symbiosis and Nodulation

Plant–Environment Response Pathway Regulation Uncovered by Investigating Non-Typical Legume Symbiosis and Nodulation

Identification of Stress Responsive NAC Genes in Casuarina equisetifolia L. and Its Expression Analysis under Abiotic Stresses

The Complete Chloroplast Genome of an Epiphytic Leafless Orchid, Taeniophyllum complanatum: Comparative Analysis and Phylogenetic Relationships

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