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For: Dudchenko O, Batra SS, Omer AD, Nyquist SK, Hoeger M, Durand NC, Shamim MS, Machol I, Lander ES, Aiden AP, Aiden EL. De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds. Science 2017;356:92-95. [PMID: 28336562 PMCID: PMC5635820 DOI: 10.1126/science.aal3327] [Citation(s) in RCA: 1640] [Impact Index Per Article: 205.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Accepted: 03/13/2017] [Indexed: 01/04/2023]
Number Cited by Other Article(s)
1
Wu H, Yang W, Dong G, Hu Q, Li D, Liu J. Construction of the super pan-genome for the genus Actinidia reveals structural variations linked to phenotypic diversity. HORTICULTURE RESEARCH 2025;12:uhaf067. [PMID: 40303430 PMCID: PMC12038230 DOI: 10.1093/hr/uhaf067] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2024] [Accepted: 02/23/2025] [Indexed: 05/02/2025]
2
She H, Liu Z, Xu Z, Zhang H, Wu J, Wang X, Cheng F, Charlesworth D, Qian W. Genome sequence of the wild species, Spinacia tetrandra, including a phased sequence of the extensive sex-linked region, revealing partial degeneration in evolutionary strata with unusual properties. THE NEW PHYTOLOGIST 2025;246:2765-2781. [PMID: 40281666 DOI: 10.1111/nph.70165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2024] [Accepted: 04/04/2025] [Indexed: 04/29/2025]
3
Tu M, Liu N, He Z, Dong X, Gao T, Zhu A, Yang J, Zhang S. Integrative omics reveals mechanisms of biosynthesis and regulation of floral scent in Cymbidium tracyanum. PLANT BIOTECHNOLOGY JOURNAL 2025;23:2162-2181. [PMID: 40091604 PMCID: PMC12120893 DOI: 10.1111/pbi.70025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2024] [Revised: 01/20/2025] [Accepted: 02/10/2025] [Indexed: 03/19/2025]
4
Luo J, Luo C, Han M, Wang Q, Song Z, Zhang H, Gao Q, Lin T, Huang C, Zhao Y, Ma C. A natural variation of flavone synthase II gene enhances flavone accumulation and confers drought adaptation in chrysanthemum. THE NEW PHYTOLOGIST 2025. [PMID: 40448392 DOI: 10.1111/nph.70255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2025] [Accepted: 05/06/2025] [Indexed: 06/02/2025]
5
Wang R, Dai X, Zhao S, Yin Z, Su L, Wang C, Chen H, Zheng L, Liu Y, Zhai Y. Chromosomal-level genome assembly of solitary bee pollinator Osmia excavata Alfken (Hymenoptera: Megachilidae). Sci Data 2025;12:908. [PMID: 40442156 PMCID: PMC12123002 DOI: 10.1038/s41597-025-05080-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2025] [Accepted: 04/28/2025] [Indexed: 06/02/2025]  Open
6
Sun D, Lv J, Gao B, Jia S, Liu P, Li J, Li J, Ren X. Chromosome-level genome assembly of scalloped spiny lobster Panulirus homarus homarus. Sci Data 2025;12:900. [PMID: 40436891 PMCID: PMC12120130 DOI: 10.1038/s41597-025-05253-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2025] [Accepted: 05/21/2025] [Indexed: 06/01/2025]  Open
7
Wei Z, Li Y, Li Y, Liu J, Ding S, Chen X, Shi A, Yang D. Chromosome-level genome assembly of Sambus kanssuensis (Coleoptera: Buprestidae). Sci Data 2025;12:895. [PMID: 40436974 PMCID: PMC12119912 DOI: 10.1038/s41597-025-05271-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2025] [Accepted: 05/21/2025] [Indexed: 06/01/2025]  Open
8
Yan Z, Shi X, Cai Y, Sun W, He P, Wu L, Zhang J, Guo X, Wang B, Yu F, Liu W. Chromosome-level genome assemblies of Verpa bohemica and Verpa conica. Sci Data 2025;12:880. [PMID: 40425600 PMCID: PMC12117090 DOI: 10.1038/s41597-025-05224-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2025] [Accepted: 05/16/2025] [Indexed: 05/29/2025]  Open
9
Ding Y, Zhao Y, Xie Y, Wang F, Bi W, Wu M, Zhao G, Gong Y, Li W, Zhang P. High-quality assembly of the chromosomal genome for Flemingia macrophylla reveals genomic structural characteristics. BMC Genomics 2025;26:535. [PMID: 40419955 DOI: 10.1186/s12864-025-11705-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2024] [Accepted: 05/13/2025] [Indexed: 05/28/2025]  Open
10
Wang LY, Xiao L, Ren TY, Cheng LX, Xiong JH, Fan Z, Zhang ZS. A chromosomal-level genome assembly of Araneus marmoreus Schenkel, 1953 (Araneae: Araneidae). Sci Data 2025;12:859. [PMID: 40413234 PMCID: PMC12103598 DOI: 10.1038/s41597-025-05215-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2025] [Accepted: 05/15/2025] [Indexed: 05/27/2025]  Open
11
Ning Y, Li Y, Li CY, Wang JZ, Wang TS, Zheng YC, Zhan YY, Xu SJ, Dong SB, Wang YF. Chromosome-level genome assembly for clubrush (Scirpus × mariqueter) endemic to China. Sci Data 2025;12:839. [PMID: 40404652 PMCID: PMC12098773 DOI: 10.1038/s41597-025-05204-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2024] [Accepted: 05/14/2025] [Indexed: 05/24/2025]  Open
12
Liu Y, Li X, Meng Y, Wu Y, Jin Y, Ma X, Zhou W, Tan Y, Lin FC, Wang H. The whole genome sequence of Cordyceps cicadae - an edible and potential medicinal fungus. Mol Genet Genomics 2025;300:50. [PMID: 40399565 DOI: 10.1007/s00438-025-02255-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2025] [Accepted: 04/24/2025] [Indexed: 05/23/2025]
13
Ito Y, Sanno R, Ashikari S, Yura K, Asahi T, Ylla G, Kataoka K. Chromosome-scale whole genome assembly and annotation of the Jamaican field cricket Gryllus assimilis. Sci Data 2025;12:826. [PMID: 40394066 PMCID: PMC12092778 DOI: 10.1038/s41597-025-05197-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2024] [Accepted: 05/14/2025] [Indexed: 05/22/2025]  Open
14
Li Q, He K, Lu Y, He B, Zheng X, Lu Z, Li F, Xu H. A vetiver-specific terpene synthase VzTPS9 contributes to the high attractiveness of vetiver to rice stem borer. Proc Natl Acad Sci U S A 2025;122:e2424863122. [PMID: 40324074 DOI: 10.1073/pnas.2424863122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2024] [Accepted: 03/27/2025] [Indexed: 05/07/2025]  Open
15
Martinez-Hernandez JE, Salvo-Garrido H, Levicoy D, Caligari PDS, Rupayán A, Moyano T, Carrasco M, Hernandez S, Armijo-Godoy G, Westermeyer F, Larama G. Genomic structure of yellow lupin (Lupinus luteus): genome organization, evolution, gene family expansion, metabolites and protein synthesis. BMC Genomics 2025;26:477. [PMID: 40369454 PMCID: PMC12076967 DOI: 10.1186/s12864-025-11678-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2024] [Accepted: 05/06/2025] [Indexed: 05/16/2025]  Open
16
Yu H, Guo J, Wu X, Liang J, Fan S, Du H, Zhao S, Li Z, Liu G, Xiao Y, Luo J, Gao Y, Chen Q, Gao H, Peng F. Haplotype-resolved genome assembly provides insights into the genetic basis of green peach aphid resistance in peach. Curr Biol 2025:S0960-9822(25)00556-1. [PMID: 40381617 DOI: 10.1016/j.cub.2025.04.059] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2024] [Revised: 03/06/2025] [Accepted: 04/23/2025] [Indexed: 05/20/2025]
17
Liu Y, Chen Y, Ren Z, Li K, Wang X, Wu K, Liu J, Sade N, He H, Li S, Jiang H, Han X. Two haplotype-resolved telomere-to-telomere genome assemblies of Xanthoceras sorbifolium. Sci Data 2025;12:791. [PMID: 40368912 PMCID: PMC12078709 DOI: 10.1038/s41597-025-05057-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2025] [Accepted: 04/23/2025] [Indexed: 05/16/2025]  Open
18
DeWeese K, Molano G, Calhoun S, Lipzen A, Jenkins J, Williams M, Plott C, Talag J, Grimwood J, Jannink JL, Grigoriev IV, Schmutz J, Yarish C, Nuzhdin S, Lindell S. Scaffolded and annotated nuclear and organelle genomes of the North American brown alga Saccharina latissima. Front Genet 2025;16:1494480. [PMID: 40438323 PMCID: PMC12116465 DOI: 10.3389/fgene.2025.1494480] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2024] [Accepted: 04/23/2025] [Indexed: 06/01/2025]  Open
19
Wu B, Luo D, Yue Y, Yan H, He M, Ma X, Zhao B, Xu B, Zhu J, Wang J, Jia J, Sun M, Xie Z, Wang X, Huang L. New insights into the cold tolerance of upland switchgrass by integrating a haplotype-resolved genome and multi-omics analysis. Genome Biol 2025;26:128. [PMID: 40369670 PMCID: PMC12076936 DOI: 10.1186/s13059-025-03604-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2024] [Accepted: 05/06/2025] [Indexed: 05/16/2025]  Open
20
Wang J, Chen K, Zhang R, Huang Y, Chen J. A haplotype-resolved genome assembly and gene expression map of Cushion willow. Sci Data 2025;12:785. [PMID: 40360525 PMCID: PMC12075806 DOI: 10.1038/s41597-025-05132-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2024] [Accepted: 05/01/2025] [Indexed: 05/15/2025]  Open
21
Han X, Li X, Xu L, Liu Q, Su S, Yao W, He W. The telomere-to-telomere genome assembly and annotation of the rock carp (Procypris rabaudi). Sci Data 2025;12:781. [PMID: 40360522 PMCID: PMC12075466 DOI: 10.1038/s41597-025-05066-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2025] [Accepted: 04/24/2025] [Indexed: 05/15/2025]  Open
22
Chen P, Zhong Z, Jin WX, Sun J, Sun SC. Chromosome-scale assembly of Artemia tibetiana genome, first aquatic invertebrate genome from Tibet Plateau. Sci Data 2025;12:777. [PMID: 40355476 PMCID: PMC12069563 DOI: 10.1038/s41597-025-05136-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2025] [Accepted: 05/01/2025] [Indexed: 05/14/2025]  Open
23
Liu S, Shi C, Chen C, Tan Y, Tian Y, Macqueen DJ, Li Q. Haplotype-resolved genomes provide insights into the origins and functional significance of genome diversity in bivalves. Cell Rep 2025;44:115697. [PMID: 40349337 DOI: 10.1016/j.celrep.2025.115697] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2024] [Revised: 03/20/2025] [Accepted: 04/23/2025] [Indexed: 05/14/2025]  Open
24
Susek K, Vincenzi L, Tomaszewska M, Kroc M, Franco E, Cosentino E, Limongi AR, Tanwar UK, Jamil H, Nelson MN, Bayer PE, Edwards D, Papa R, Delledonne M, Jackson SA. The unexplored diversity of rough-seeded lupins provides rich genomic resources and insights into lupin evolution. Nat Commun 2025;16:4358. [PMID: 40348738 PMCID: PMC12065815 DOI: 10.1038/s41467-025-58531-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2024] [Accepted: 03/20/2025] [Indexed: 05/14/2025]  Open
25
Kon T, Kon-Nanjo K, Handayani KS, Zang L, Fahrurrozi F, Simakov O, Gultom VDN, Shimada Y. Chromosome-level genome assembly of the doctor fish (Garra rufa). Sci Data 2025;12:765. [PMID: 40346083 PMCID: PMC12064734 DOI: 10.1038/s41597-025-05101-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2025] [Accepted: 04/29/2025] [Indexed: 05/11/2025]  Open
26
Petroll R, West JA, Ogden M, McGinley O, Craig RJ, Coelho SM, Borg M. The expanded Bostrychia moritziana genome unveils evolution in the most diverse and complex order of red algae. Curr Biol 2025:S0960-9822(25)00508-1. [PMID: 40345196 DOI: 10.1016/j.cub.2025.04.044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2025] [Revised: 04/13/2025] [Accepted: 04/17/2025] [Indexed: 05/11/2025]
27
Kim IV, Navarrete C, Grau-Bové X, Iglesias M, Elek A, Zolotarov G, Bykov NS, Montgomery SA, Ksiezopolska E, Cañas-Armenteros D, Soto-Angel JJ, Leys SP, Burkhardt P, Suga H, de Mendoza A, Marti-Renom MA, Sebé-Pedrós A. Chromatin loops are an ancestral hallmark of the animal regulatory genome. Nature 2025:10.1038/s41586-025-08960-w. [PMID: 40335694 DOI: 10.1038/s41586-025-08960-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Accepted: 03/31/2025] [Indexed: 05/09/2025]
28
Cheng HY, Jiang LP, Fei Y, Lu F, Ma S. An annotated near-complete sequence assembly of the Magnaporthe oryzae 70-15 reference genome. Sci Data 2025;12:758. [PMID: 40335505 PMCID: PMC12059122 DOI: 10.1038/s41597-025-05116-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2025] [Accepted: 04/28/2025] [Indexed: 05/09/2025]  Open
29
Xiong M, Cheng R, He B, Wu CS, Zhu CD, Luo A, Zhou QS. Chromosome-level genome assembly of Parotis chlorochroalis (Lepidoptera: Crambidae: Spilomelinae). Sci Data 2025;12:743. [PMID: 40328770 PMCID: PMC12056075 DOI: 10.1038/s41597-025-05053-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2024] [Accepted: 04/23/2025] [Indexed: 05/08/2025]  Open
30
Chen L, Wang H, Xu T, Liu R, Zhu J, Li H, Zhang H, Tang L, Jing D, Yang X, Guo Q, Wang P, Wang L, Liu J, Duan S, Liu Z, Huang M, Li X, Lu Z. A telomere-to-telomere gap-free assembly integrating multi-omics uncovers the genetic mechanism of fruit quality and important agronomic trait associations in pomegranate. PLANT BIOTECHNOLOGY JOURNAL 2025. [PMID: 40318230 DOI: 10.1111/pbi.70107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2025] [Revised: 03/26/2025] [Accepted: 04/09/2025] [Indexed: 05/07/2025]
31
Athar F, Zheng Z, Riquier S, Zacher M, Lu JY, Zhao Y, Volobaev V, Alcock D, Galazyuk A, Cooper LN, Schountz T, Wang LF, Teeling EC, Seluanov A, Gorbunova V. Limited cell-autonomous anticancer mechanisms in long-lived bats. Nat Commun 2025;16:4125. [PMID: 40319021 PMCID: PMC12049446 DOI: 10.1038/s41467-025-59403-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2024] [Accepted: 04/22/2025] [Indexed: 05/07/2025]  Open
32
Wang C, Tan L, Zhang Z, Li X, Xia L, Cao P, Tong H, Ou X, Li S, Zhang J, Li C, Yang J, Jiao WB, Wang S. Haplotype-resolved genome reveals haplotypic variation and the biosynthesis of medicinal ingredients in Areca catechu L. MOLECULAR HORTICULTURE 2025;5:24. [PMID: 40312749 PMCID: PMC12046898 DOI: 10.1186/s43897-025-00146-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2024] [Accepted: 01/15/2025] [Indexed: 05/03/2025]
33
Wang Y, Zhao L, Wang D, Chen K, Luo T, Luo J, Jiang C, He Z, Huang H, Xie J, Jiang Y, Liu J, Ma T. Four near-complete genome assemblies reveal the landscape and evolution of centromeres in Salicaceae. Genome Biol 2025;26:111. [PMID: 40317068 PMCID: PMC12046899 DOI: 10.1186/s13059-025-03578-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2024] [Accepted: 04/15/2025] [Indexed: 05/04/2025]  Open
34
Chen X, Jiang T, Xue J, Gu M, Wang M, Liu K. Chromosome-level genome assembly of the freshwater bivalve Anodonta woodiana. Sci Data 2025;12:731. [PMID: 40316565 PMCID: PMC12048480 DOI: 10.1038/s41597-025-05078-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2024] [Accepted: 04/28/2025] [Indexed: 05/04/2025]  Open
35
Moffett AS, Falcón-Cortés A, Di Pierro M. Quantifying the influence of genetic context on duplicated mammalian genes. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.04.03.647042. [PMID: 40236061 PMCID: PMC11996522 DOI: 10.1101/2025.04.03.647042] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/17/2025]
36
Xu H, Han Y, Chi X, Yu J, Xia M, Han S, Niu Y, Zhang F, Chen S. Integration of De Novo Chromosome-Level Genome and Population Resequencing of Peganum (Nitrariaceae): A Case Study of Speciation and Evolutionary Trajectories in Arid Central Asia. Mol Ecol Resour 2025;25:e14078. [PMID: 39925320 DOI: 10.1111/1755-0998.14078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2024] [Revised: 12/19/2024] [Accepted: 01/27/2025] [Indexed: 02/11/2025]
37
Yang Y, Chen J, Hu X. Gap-free genome assembly and comparative analysis reveal the evolution and lignin degradation mechanisms of Cylindrobasidium torrendii. Genomics 2025;117:111029. [PMID: 40068802 DOI: 10.1016/j.ygeno.2025.111029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2024] [Revised: 02/17/2025] [Accepted: 03/06/2025] [Indexed: 03/20/2025]
38
Yu H, Wang H, Liang X, Liu J, Jiang C, Chi X, Zhi N, Su P, Zha L, Gui S. Telomere-to-telomere gap-free genome assembly provides genetic insight into the triterpenoid saponins biosynthesis in Platycodon grandiflorus. HORTICULTURE RESEARCH 2025;12:uhaf030. [PMID: 40224331 PMCID: PMC11992332 DOI: 10.1093/hr/uhaf030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/06/2024] [Accepted: 01/29/2025] [Indexed: 04/15/2025]
39
Adaskaveg JA, Lee C, Wei Y, Wang F, Grilo FS, Mesquida‐Pesci SD, Davis M, Wang SC, Marino G, Ferguson L, Brown PJ, Drakakaki G, Morales AM, Marchese A, Giovino A, Burgos EM, Marra FP, Cuevas LM, Cattivelli L, Bagnaresi P, Carbonell‐Bejerano P, Monroe JG, Blanco‐Ulate B. In a nutshell: pistachio genome and kernel development. THE NEW PHYTOLOGIST 2025;246:1032-1048. [PMID: 40107319 PMCID: PMC11982797 DOI: 10.1111/nph.70060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2024] [Accepted: 02/19/2025] [Indexed: 03/22/2025]
40
Zhou T, Huang XJ, Cheng YJ, Zhang XY, Wang XJ, Li ZH. Telomere-to-telomere genome and multi-omics analysis of Prunus avium cv. Tieton provides insights into its genomic evolution and flavonoid biosynthesis. Int J Biol Macromol 2025;306:141809. [PMID: 40057088 DOI: 10.1016/j.ijbiomac.2025.141809] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2024] [Revised: 02/17/2025] [Accepted: 03/05/2025] [Indexed: 05/11/2025]
41
Cox K, Gouwy J, Mergeay J, Neyrinck S, Van Den Berge K. Rapid Colonisation of Synanthropic Stone Martens in a Highly Urbanised Region: Insights From Temporal and Spatial Analysis. Ecol Evol 2025;15:e71392. [PMID: 40421061 PMCID: PMC12104667 DOI: 10.1002/ece3.71392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2025] [Revised: 04/15/2025] [Accepted: 04/20/2025] [Indexed: 05/28/2025]  Open
42
Liu C, Li D, Dang J, Shu J, Smit SJ, Wu Q, Lichman BR. Haplotype-resolved genome of Agastache rugosa (Huo Xiang) provides insight into monoterpenoid biosynthesis and gene cluster evolution. HORTICULTURE RESEARCH 2025;12:uhaf034. [PMID: 40224328 PMCID: PMC11992331 DOI: 10.1093/hr/uhaf034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/31/2024] [Accepted: 01/25/2025] [Indexed: 04/15/2025]
43
Wang Y, Huang D, Luo J, Yao S, Chen J, Li L, Geng J, Mo Y, Ming R, Liu J. The chromosome-level genome of Centella asiatica provides insights into triterpenoid biosynthesis. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2025;222:109710. [PMID: 40054110 DOI: 10.1016/j.plaphy.2025.109710] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2024] [Revised: 02/19/2025] [Accepted: 02/24/2025] [Indexed: 05/07/2025]
44
Zhu Z, Yang X, Kang W, Cai C, Zhou Q. Chromosome-Level Genome Assembly and Annotation of the Amur Rat Snake Elaphe schrenckii. Genome Biol Evol 2025;17:evaf086. [PMID: 40333365 PMCID: PMC12089936 DOI: 10.1093/gbe/evaf086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2025] [Revised: 04/26/2025] [Accepted: 04/29/2025] [Indexed: 05/09/2025]  Open
45
Zhang R, Wnag M, Zhang G, Gao X, Xiang N, Liu S, Zhao Y, Qin L, Yuan T. Chromosomal level genome assembly of medicinal plant Rosa laevigata. Sci Data 2025;12:716. [PMID: 40307259 PMCID: PMC12043960 DOI: 10.1038/s41597-025-05025-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2025] [Accepted: 04/16/2025] [Indexed: 05/02/2025]  Open
46
Liang YY, Liu H, Lin QQ, Shi Y, Zhou BF, Wang JS, Chen XY, Shen Z, Qiao LJ, Niu JW, Ling SJ, Luo WJ, Zhao W, Liu JF, Kuang YW, Ingvarsson PK, Guo YL, Wang B. Pan-Genome Analysis Reveals Local Adaptation to Climate Driven by Introgression in Oak Species. Mol Biol Evol 2025;42:msaf088. [PMID: 40235155 PMCID: PMC12042805 DOI: 10.1093/molbev/msaf088] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2024] [Revised: 04/01/2025] [Accepted: 04/02/2025] [Indexed: 04/17/2025]  Open
47
Li P, Fan X, Li S, Tong Y, Tian Z, Zhang Y, Wu S, Wang C, Xiao Y, Wang G, Bai M. Chromosome-level genome assembly of the sap beetle Glischrochilus (Librodor) japonius (Coleoptera: Nitidulidae). Sci Data 2025;12:711. [PMID: 40301379 PMCID: PMC12041576 DOI: 10.1038/s41597-025-04774-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2024] [Accepted: 03/06/2025] [Indexed: 05/01/2025]  Open
48
Hu Y, Wang J, Liu L, Yi X, Wang X, Wang J, Hao Y, Qin L, Li K, Feng Y, Zhang Z, Wu H, Jiao Y. Evolutionary history of magnoliid genomes and benzylisoquinoline alkaloid biosynthesis. Nat Commun 2025;16:4039. [PMID: 40301376 PMCID: PMC12041406 DOI: 10.1038/s41467-025-59343-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2024] [Accepted: 04/20/2025] [Indexed: 05/01/2025]  Open
49
Zeng Y, Cai Y, Zhou X, Wang S, Li L, Yao Y, Yu J, Liu X, Yang H, Wei T, Dong S, Liu Y. Chromosome-level genomes of Arctic and Antarctic mosses: Aulacomnium turgidum and Polytrichastrum alpinum. Sci Data 2025;12:705. [PMID: 40301385 PMCID: PMC12041281 DOI: 10.1038/s41597-025-04960-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2024] [Accepted: 04/07/2025] [Indexed: 05/01/2025]  Open
50
Xiu C, Zhao D, Zhang J, Liu H, Wang Y, Liu H, Cai X, Luo Z, Bian L, Fu N, Zhou L, Chen Z, Li Z. Chromosome-level genome assembly of Dendrothrips minowai and genomic analysis highlights distinct adaptations to high polyphenols in tea plants. PEST MANAGEMENT SCIENCE 2025. [PMID: 40271779 DOI: 10.1002/ps.8781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2024] [Revised: 03/04/2025] [Accepted: 03/07/2025] [Indexed: 04/25/2025]
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