ArticleGigaScience2018
Long-read sequencing and de novo genome assembly of Ammopiptanthus nanus, a desert shrub.
Article in GigaScience, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Margins of adaptation at the desert frontier: genetic responses of Ammopiptanthus mongolicus in arid northwestern China.Botanical studies · 2025Review
- A reference-grade genome of the xerophyte Ammopiptanthus mongolicus sheds light on its evolution history in legumes and drought-tolerance mechanisms.Plant communications · 2024Article
- Chemical and Transcriptomic Analyses of Leaf Cuticular Wax Metabolism inBiomolecules · 2024Article
- The Characterization of R2R3-MYB Genes inBiomolecules · 2023Article
- Chromosome-level genome assembly of the endangered plant Tetraena mongolica.DNA research : an international journal for rapid publication of reports on genes and genomes · 2023Article
- Combined lncRNA and mRNA Expression Profiles Identified the lncRNA-miRNA-mRNA Modules Regulating the Cold Stress Response inInternational journal of molecular sciences · 2023Article
- Gene Profiling of the Ascorbate Oxidase Family Genes under Osmotic and Cold Stress Reveals the Role of AnAO5 in Cold Adaptation inPlants (Basel, Switzerland) · 2023Article
- Genome-Wide Analyses of Thaumatin-like Protein Family Genes Reveal the Involvement in the Response to Low-Temperature Stress inInternational journal of molecular sciences · 2023Article
- IsolatingInternational journal of molecular sciences · 2022Article
- Chromosome-level genome assembly of a xerophytic plant, Haloxylon ammodendron.DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
- Parallel adaptation prompted core-periphery divergence ofFrontiers in plant science · 2022Article
- Small RNA Sequencing Revealed that miR4415, a Legume-Specific miRNA, was Involved in the Cold Acclimation ofFrontiers in genetics · 2022Article
- The first draft genome of Picrorhiza kurrooa, an endangered medicinal herb from Himalayas.Scientific reports · 2021Article
- Genome-Wide Identification and Expression Analyses ofPlants (Basel, Switzerland) · 2021Article
- Delineating theInternational journal of molecular sciences · 2021Article
- The high-quality genome of diploid strawberry (Fragaria nilgerrensis) provides new insights into anthocyanin accumulation.Plant biotechnology journal · 2020Article
- Characterization of the AP2/ERF Transcription Factor Family and Expression Profiling of DREB Subfamily under Cold and Osmotic Stresses inPlants (Basel, Switzerland) · 2020Article
- Genome-Wide Identification and Expression Analyses of the Chitinases under Cold and Osmotic stress inGenes · 2019Article
- Long-read sequencing and de novo genome assembly of Ammopiptanthus nanus, a desert shrub.GigaScience · 2018Article
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Background: Ammopiptanthus nanus is a rare broad-leaved shrub that is found in the desert and arid regions of Central Asia. This plant species exhibits extremely high tolerance to drought and freezing and has been used in abiotic tolerance research in plants. As a relic of the tertiary period, A. nanus is of great significance to plant biogeographic research in the ancient Mediterranean region. Here, we report a draft genome assembly using the Pacific Biosciences (PacBio) platform and gene annotation for A. nanus. Findings: A total of 64.72 Gb of raw PacBio sequel reads were generated from four 20-kb libraries. After filtering, 64.53 Gb of clean reads were obtained, giving 72.59× coverage depth. Assembly using Canu gave an assembly length of 823.74 Mb, with a contig N50 of 2.76 Mb. The final size of the assembled A. nanus genome was close to the 889 Mb estimated by k-mer analysis. The gene annotation completeness was evaluated using Benchmarking Universal Single-Copy Orthologs; 1,327 of the 1,440 conserved genes (92.15%) could be found in the A. nanus assembly. Genome annotation revealed that 74.08% of the A. nanus genome is composed of repetitive elements and 53.44% is composed of long terminal repeat elements. We predicted 37,188 protein-coding genes, of which 96.53% were functionally annotated. Conclusions: The genomic sequences of A. nanus could be a valuable source for comparative genomic analysis in the legume family and will be useful for understanding the phylogenetic relationships of the Thermopsideae and the evolutionary response of plant species to the Qinghai Tibetan Plateau uplift.
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