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For: Vurture GW, Sedlazeck FJ, Nattestad M, Underwood CJ, Fang H, Gurtowski J, Schatz MC. GenomeScope: fast reference-free genome profiling from short reads. Bioinformatics 2018;33:2202-2204. [PMID: 28369201 DOI: 10.1093/bioinformatics/btx153] [Citation(s) in RCA: 1129] [Impact Index Per Article: 161.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2016] [Accepted: 03/17/2017] [Indexed: 02/03/2023]  Open
Number Cited by Other Article(s)
1
Harish J, Prasannakumar MK, Venkateshbabu G, Karan R, Mahesh HB, Devanna P, Sarangi AN, Patil SS, Tejashwini V, Lohithaswa HC, Kagale S. Molecular and genomic insights into the pathogenicity of Sarocladium zeae causing maize stalk rot disease. Microbiol Res 2025;296:128146. [PMID: 40168814 DOI: 10.1016/j.micres.2025.128146] [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: 10/05/2024] [Revised: 03/07/2025] [Accepted: 03/15/2025] [Indexed: 04/03/2025]
2
Matsuda T, Sakamoto H, Kayukawa T, Kitashima Y, Kozaki T, Gotoh T. A PCR primer design method for identifying spider mite species using k-mer counting. PLoS One 2025;20:e0321199. [PMID: 40489514 DOI: 10.1371/journal.pone.0321199] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2024] [Accepted: 03/03/2025] [Indexed: 06/11/2025]  Open
3
Bai Y, Zeng F, Zhang M, Zhao C, Pang S, Wang G. Chromosome-level genome assembly and annotation of the maize weevil (Sitophilus zeamais Motschulsky). Sci Data 2025;12:966. [PMID: 40490451 DOI: 10.1038/s41597-025-05341-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2025] [Accepted: 06/04/2025] [Indexed: 06/11/2025]  Open
4
Han JN, Li Y, Li W, Yan HH, Yuan F, Chen HG, Han DJ, Kang ZS, Zeng QD. Haplotype-resolved telomere-to-telomere genome assembly of the dikaryotic fungus pathogen Rhizoctonia cerealis. Sci Data 2025;12:951. [PMID: 40481055 PMCID: PMC12144256 DOI: 10.1038/s41597-025-05260-w] [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: 01/01/2025] [Accepted: 05/22/2025] [Indexed: 06/11/2025]  Open
5
Chen M, Song X, Wu S, Yu A, Wei X, Qiu J, Pei D. Genomic insights into genome-wide heterozygosity and its impact on walnut adaptive evolution and improvement. MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2025;45:50. [PMID: 40438424 PMCID: PMC12106288 DOI: 10.1007/s11032-025-01572-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 02/12/2025] [Accepted: 05/02/2025] [Indexed: 06/01/2025]
6
Pegan TM, Kimmitt AA, Benz BW, Weeks BC, Aubry Y, Burg TM, Hudon J, Jones AW, Kirchman JJ, Ruegg KC, Winger BM. Long-distance seasonal migration to the tropics promotes genetic diversity but not gene flow in boreal birds. Nat Ecol Evol 2025;9:957-969. [PMID: 40394201 DOI: 10.1038/s41559-025-02699-3] [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: 10/23/2024] [Accepted: 03/26/2025] [Indexed: 05/22/2025]
7
Lee C, Epstein L, Kaur S, Henry PM, Postma-Haarsma AD, Monroe JG, Van Deynze A. A well-annotated genome of Apium graveolens var. dulce cv. Challenger, a celery with resistance to Fusarium oxysporum f. sp. apii race 2. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2025;122:e70251. [PMID: 40489902 DOI: 10.1111/tpj.70251] [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: 03/06/2025] [Revised: 05/07/2025] [Accepted: 05/19/2025] [Indexed: 06/11/2025]
8
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
9
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
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
Shi Y, Li P, Sun J, Li M, Jiang J, Xin Y, Chen Z, Zeng W. De-novo assembly and comparative analysis of the complete mitogenome of traditional Chinese medicine Strobilanthes sarcorrhiza. BMC PLANT BIOLOGY 2025;25:675. [PMID: 40399802 PMCID: PMC12093712 DOI: 10.1186/s12870-025-06731-3] [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] [Subscribe] [Scholar Register] [Received: 02/16/2025] [Accepted: 05/15/2025] [Indexed: 05/23/2025]
12
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
13
Wang XF, Liu TJ, Feng T, Huang HR, Zou P, Wei X, Wu X, Chai SF, Yan HF. A telomere-to-telomere genome assembly of Camellia nitidissima. Sci Data 2025;12:815. [PMID: 40383822 PMCID: PMC12086203 DOI: 10.1038/s41597-025-05157-8] [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: 01/22/2025] [Accepted: 05/08/2025] [Indexed: 05/20/2025]  Open
14
Dong WY, Huang TY, Zhao SY, Zhang J, Lei Y, Huang J, Zhou ZS, Lu YB. Chromosome-level genome assembly of the parasitoid wasp Aenasius arizonensis. Sci Data 2025;12:809. [PMID: 40382346 PMCID: PMC12085690 DOI: 10.1038/s41597-025-05020-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: 12/09/2024] [Accepted: 04/14/2025] [Indexed: 05/20/2025]  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
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
18
Natarajan S, Gehrke J, Pucker B. Mapping-based genome size estimation. BMC Genomics 2025;26:482. [PMID: 40369445 PMCID: PMC12079912 DOI: 10.1186/s12864-025-11640-8] [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: 11/09/2024] [Accepted: 04/25/2025] [Indexed: 05/16/2025]  Open
19
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
20
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]
21
Ibrahim A, Chai S, Zhong C, Jieqiong K, Ali A, Hussain S, Ali H, Hussain T, Waqas U, Yang G. Low Heterozygosity and Historical Bottleneck Effect Depicted From the Genome Assembly of the Indus River Dolphin (Platanista minor). Ecol Evol 2025;15:e71462. [PMID: 40416769 PMCID: PMC12103917 DOI: 10.1002/ece3.71462] [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: 08/28/2024] [Revised: 04/29/2025] [Accepted: 05/08/2025] [Indexed: 05/27/2025]  Open
22
Li X, Liu J, Hong Q, Ma X, Wang L, Xie Z. Validation of male-specific markers confirmed an XY/XX-type sex determination system in Chinese dark sleeper (Odontobutis sinensis). Genomics 2025;117:111053. [PMID: 40348286 DOI: 10.1016/j.ygeno.2025.111053] [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: 12/06/2024] [Revised: 03/29/2025] [Accepted: 05/02/2025] [Indexed: 05/14/2025]
23
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]
24
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]
25
De Jode A, Titus BM. The First De Novo HiFi Genome Assemblies for Three Clownfish-hosting Sea Anemone Species (Anthozoa: Actiniaria). Genome Biol Evol 2025;17:evaf064. [PMID: 40198578 PMCID: PMC12046401 DOI: 10.1093/gbe/evaf064] [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: 11/15/2024] [Revised: 03/24/2025] [Accepted: 03/30/2025] [Indexed: 04/10/2025]  Open
26
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
27
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
28
Ji J, Han X, Zang L, Li Y, Lin L, Hu D, Sun S, Ren Y, Maker G, Lu Z, Wang L. Integrative multi-omics data provide insights into the biosynthesis of furanocoumarins and mechanisms regulating their accumulation in Angelica dahurica. Commun Biol 2025;8:649. [PMID: 40269101 PMCID: PMC12019236 DOI: 10.1038/s42003-025-08076-x] [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: 10/01/2024] [Accepted: 04/10/2025] [Indexed: 04/25/2025]  Open
29
Fu Z, Huang J, Wang L, Liang X, Chen Q, Hu Y, Liu J, Lu J. A chromosome-level genome assembly of Gray's grenadier anchovy, Coilia grayii. Sci Data 2025;12:656. [PMID: 40251166 PMCID: PMC12008387 DOI: 10.1038/s41597-025-04834-y] [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: 10/10/2024] [Accepted: 03/14/2025] [Indexed: 04/20/2025]  Open
30
Rutlekowski AI, Modepalli V, Ketchum R, Moran Y, Reitzel AM. De novo genome assembly of the Edwardsiid anthozoan Edwardsia elegans. G3 (BETHESDA, MD.) 2025;15:jkaf011. [PMID: 39849905 PMCID: PMC12053456 DOI: 10.1093/g3journal/jkaf011] [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: 08/13/2024] [Accepted: 01/13/2025] [Indexed: 01/25/2025]
31
Schell T, Greve C, Podsiadlowski L. Establishing genome sequencing and assembly for non-model and emerging model organisms: a brief guide. Front Zool 2025;22:7. [PMID: 40247279 PMCID: PMC12004614 DOI: 10.1186/s12983-025-00561-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2024] [Accepted: 03/23/2025] [Indexed: 04/19/2025]  Open
32
Chakravarty S, Logsdon G, Lonardi S. RAmbler resolves complex repeats in human Chromosomes 8, 19, and X. Genome Res 2025;35:863-876. [PMID: 40037839 PMCID: PMC12047272 DOI: 10.1101/gr.279308.124] [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: 03/13/2024] [Accepted: 02/06/2025] [Indexed: 03/06/2025]
33
Meng J, Wang Y, Guo R, Liu J, Jing K, Zuo J, Yuan Y, Jiang F, Dong N. Integrated genomic and transcriptomic analyses reveal the genetic and molecular mechanisms underlying hawthorn peel color and seed hardness diversity. J Genet Genomics 2025:S1673-8527(25)00097-9. [PMID: 40220858 DOI: 10.1016/j.jgg.2025.04.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2024] [Revised: 03/30/2025] [Accepted: 04/01/2025] [Indexed: 04/14/2025]
34
Liu S, Aishan S, Liu Q, Lv L, Ma K, Fan K, Zhang K, Qin Y, Li G, Hu X, Hu Z, He J, Liu H, Qin R. The chromosome-scale genomes of two cultivated safflowers (Carthamus tinctorius) provide insights into the genetic diversity resulting from domestication. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2025;138:97. [PMID: 40208296 DOI: 10.1007/s00122-025-04874-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2024] [Accepted: 03/05/2025] [Indexed: 04/11/2025]
35
Hartley GA, Okhovat M, Hoyt SJ, Fuller E, Pauloski N, Alexandre N, Alexandrov I, Drennan R, Dubocanin D, Gilbert DM, Mao Y, McCann C, Neph S, Ryabov F, Sasaki T, Storer JM, Svendsen D, Troy W, Wells J, Core L, Stergachis A, Carbone L, O'Neill RJ. Centromeric transposable elements and epigenetic status drive karyotypic variation in the eastern hoolock gibbon. CELL GENOMICS 2025;5:100808. [PMID: 40088887 PMCID: PMC12008813 DOI: 10.1016/j.xgen.2025.100808] [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: 09/16/2024] [Revised: 12/10/2024] [Accepted: 02/12/2025] [Indexed: 03/17/2025]
36
Snead AA, Meng F, Largotta N, Winchell KM, Levine BA. Diploid chromosome-level genome assembly and annotation for Lycorma delicatula. Sci Data 2025;12:579. [PMID: 40188159 PMCID: PMC11972293 DOI: 10.1038/s41597-025-04854-8] [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: 12/11/2024] [Accepted: 03/17/2025] [Indexed: 04/07/2025]  Open
37
Shi Y, Chen Z, Ge J, Jiang J, Li Q, Lin Y, Yu W, Zeng W. Chromosome-level genome assembly of the traditional medicinal plant Lindera aggregata. Sci Data 2025;12:565. [PMID: 40180968 PMCID: PMC11969015 DOI: 10.1038/s41597-025-04891-3] [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: 12/13/2024] [Accepted: 03/24/2025] [Indexed: 04/05/2025]  Open
38
Zhu B, Wei R, Hua W, Li L, Zhang W, Liang P. A-to-I RNA editing of CYP18A1 mediates transgenerational wing dimorphism in aphids. eLife 2025;13:RP96540. [PMID: 40178071 PMCID: PMC11968105 DOI: 10.7554/elife.96540] [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] [Indexed: 04/05/2025]  Open
39
He Z, Wang H, Chen Y, Chen N. Comparative genomic and phylogenetic analysis of mitochondrial genomes of the Pseudo-nitzschia HAB species. HARMFUL ALGAE 2025;144:102829. [PMID: 40187791 DOI: 10.1016/j.hal.2025.102829] [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: 11/14/2024] [Revised: 02/18/2025] [Accepted: 02/23/2025] [Indexed: 04/07/2025]
40
Lim ZH, Zheng P, Quek C, Nowrousian M, Aachmann FL, Jedd G. Diatom heterotrophy on brown algal polysaccharides emerged through horizontal gene transfer, gene duplication, and neofunctionalization. PLoS Biol 2025;23:e3003038. [PMID: 40168346 PMCID: PMC11960938 DOI: 10.1371/journal.pbio.3003038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2024] [Accepted: 01/27/2025] [Indexed: 04/03/2025]  Open
41
Gao W, Wang S, Jiang T, Hu H, Gao R, Zhou M, Wang G. Chromosome-scale and haplotype-resolved genome assembly of Populus trichocarpa. HORTICULTURE RESEARCH 2025;12:uhaf012. [PMID: 40093378 PMCID: PMC11908830 DOI: 10.1093/hr/uhaf012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/15/2024] [Accepted: 01/05/2025] [Indexed: 03/19/2025]
42
Li Y, Hu M, Zhang Z, Wu B, Zheng J, Zhang F, Hao J, Xue T, Li Z, Zhu C, Liu Y, Zhao L, Xu W, Xin P, Feng C, Wang W, Zhao Y, Qiu Q, Wang K. Origin and stepwise evolution of vertebrate lungs. Nat Ecol Evol 2025;9:672-691. [PMID: 39953253 DOI: 10.1038/s41559-025-02642-6] [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: 10/20/2023] [Accepted: 01/15/2025] [Indexed: 02/17/2025]
43
Shao S, Li Y, Feng X, Jin C, Liu M, Zhu R, Tracy ME, Guo Z, He Z, Shi S, Xu S. Chromosomal-Level Genome Suggests Adaptive Constraints Leading to the Historical Population Decline in an Extremely Endangered Plant. Mol Ecol Resour 2025;25:e14045. [PMID: 39575519 DOI: 10.1111/1755-0998.14045] [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: 01/15/2024] [Revised: 10/14/2024] [Accepted: 10/28/2024] [Indexed: 03/08/2025]
44
Liu HL, Yong YP, Wu XL, Chen ZT, Wei SJ, Cai P, Pu DQ. Chromosome-level genome assembly of the Adonis ladybird Hippodamia variegata. Sci Data 2025;12:558. [PMID: 40169630 PMCID: PMC11961608 DOI: 10.1038/s41597-025-04882-4] [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: 12/25/2024] [Accepted: 03/21/2025] [Indexed: 04/03/2025]  Open
45
Zhang L, Yesaya A, Li Z, Liang X, Xiao Y. A high-quality chromosome-level genome assembly for the agricultural pest Mythimna separata. Sci Data 2025;12:540. [PMID: 40164652 PMCID: PMC11958816 DOI: 10.1038/s41597-025-04855-7] [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: 12/26/2024] [Accepted: 03/18/2025] [Indexed: 04/02/2025]  Open
46
Köhler G, Dost O, Than NL, Ohler A, Charunrochana PT, Chuaynkern Y, Chuaynkern C, Geiss K. A taxonomic revision of the genus Raorchestes in Myanmar and Thailand with the description of two new species from Myanmar (Amphibia, Anura, Rhacophoridae). Zootaxa 2025;5613:47-81. [PMID: 40173518 DOI: 10.11646/zootaxa.5613.1.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2025] [Indexed: 04/04/2025]
47
Valencia-Pesqueira LM, Hoff SNK, Tørresen OK, Jentoft S, Lefevre S. Chromosome-level de novo genome assembly of wild, anoxia-tolerant crucian carp, Carassius carassius. Sci Data 2025;12:491. [PMID: 40128231 PMCID: PMC11933416 DOI: 10.1038/s41597-025-04813-3] [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: 11/27/2024] [Accepted: 03/11/2025] [Indexed: 03/26/2025]  Open
48
Liu J, Wang Z, Su X, Leng L, Liu J, Zhang F, Chen S, Zhang Y, Wang C. Comparative genomics provides insights into the biogeographic and biochemical diversity of meliaceous species. Nat Commun 2025;16:2603. [PMID: 40097398 PMCID: PMC11914090 DOI: 10.1038/s41467-025-57722-9] [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: 09/11/2024] [Accepted: 02/28/2025] [Indexed: 03/19/2025]  Open
49
Wang YH, Liu PZ, Zhang RR, Sun YJ, Xie YQ, Fang F, Liu H, Tan GF, Chen ZF, Zhang J, Xiong AS. Insights into dill (Anethum graveolens) flavor formation via integrative analysis of chromosomal-scale genome, metabolome and transcriptome. J Adv Res 2025:S2090-1232(25)00184-5. [PMID: 40101871 DOI: 10.1016/j.jare.2025.03.024] [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: 09/06/2024] [Revised: 02/22/2025] [Accepted: 03/14/2025] [Indexed: 03/20/2025]  Open
50
Wang Q, Zhou Q, Liu H, Li J, Jiang Y. Chromosome-level genome assembly of a critically endangered species Leuciscus chuanchicus. Sci Data 2025;12:441. [PMID: 40089515 PMCID: PMC11910599 DOI: 10.1038/s41597-025-04787-2] [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: 11/15/2024] [Accepted: 03/07/2025] [Indexed: 03/17/2025]  Open
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