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For: Duarte JM, Wall PK, Edger PP, Landherr LL, Ma H, Pires JC, Leebens-Mack J, dePamphilis CW. Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryza and their phylogenetic utility across various taxonomic levels. BMC Evol Biol 2010;10:61. [PMID: 20181251 PMCID: PMC2848037 DOI: 10.1186/1471-2148-10-61] [Citation(s) in RCA: 229] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2008] [Accepted: 02/24/2010] [Indexed: 01/27/2023]  Open
Number Cited by Other Article(s)
1
Guo X, Wang H, Lin D, Wang Y, Jin X. Cytonuclear evolution in fully heterotrophic plants: lifestyles and gene function determine scenarios. BMC PLANT BIOLOGY 2024;24:989. [PMID: 39428472 PMCID: PMC11492565 DOI: 10.1186/s12870-024-05702-4] [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: 08/08/2024] [Accepted: 10/14/2024] [Indexed: 10/22/2024]
2
Bentz PC, Leebens‐Mack J. Developing Asparagaceae1726: An Asparagaceae-specific probe set targeting 1726 loci for Hyb-Seq and phylogenomics in the family. APPLICATIONS IN PLANT SCIENCES 2024;12:e11597. [PMID: 39360194 PMCID: PMC11443443 DOI: 10.1002/aps3.11597] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Revised: 01/18/2024] [Accepted: 02/19/2024] [Indexed: 10/04/2024]
3
Naranjo JG, Sither CB, Conant GC. Shared single copy genes are generally reliable for inferring phylogenetic relationships among polyploid taxa. Mol Phylogenet Evol 2024;196:108087. [PMID: 38677353 DOI: 10.1016/j.ympev.2024.108087] [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: 12/12/2023] [Revised: 03/22/2024] [Accepted: 04/24/2024] [Indexed: 04/29/2024]
4
Cantu D, Massonnet M, Cochetel N. The wild side of grape genomics. Trends Genet 2024;40:601-612. [PMID: 38777691 DOI: 10.1016/j.tig.2024.04.014] [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: 03/04/2024] [Revised: 04/23/2024] [Accepted: 04/24/2024] [Indexed: 05/25/2024]
5
Muti RM, Barrett CF, Sinn BT. Evolution of Whirly1 in the angiosperms: sequence, splicing, and expression in a clade of early transitional mycoheterotrophic orchids. FRONTIERS IN PLANT SCIENCE 2024;15:1241515. [PMID: 39006962 PMCID: PMC11239579 DOI: 10.3389/fpls.2024.1241515] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/16/2023] [Accepted: 06/07/2024] [Indexed: 07/16/2024]
6
Khan R, Biffin E, van Dijk KJ, Hill RS, Liu J, Waycott M. Development of a Target Enrichment Probe Set for Conifer (REMcon). BIOLOGY 2024;13:361. [PMID: 38927241 PMCID: PMC11200496 DOI: 10.3390/biology13060361] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 05/16/2024] [Accepted: 05/16/2024] [Indexed: 06/28/2024]
7
Scali M, Spinsanti G, Vignani R. Validation of a simplified small-scale DNA extraction protocol from wine by quantitative real-time PCR. 3 Biotech 2024;14:145. [PMID: 38706928 PMCID: PMC11065827 DOI: 10.1007/s13205-024-03992-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Accepted: 04/17/2024] [Indexed: 05/07/2024]  Open
8
Apodiakou A, Alseekh S, Hoefgen R, Whitcomb SJ. Overexpression of SLIM1 transcription factor accelerates vegetative development in Arabidopsis thaliana. FRONTIERS IN PLANT SCIENCE 2024;15:1327152. [PMID: 38571711 PMCID: PMC10988502 DOI: 10.3389/fpls.2024.1327152] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Accepted: 03/01/2024] [Indexed: 04/05/2024]
9
Zwonitzer KD, Tressel LG, Wu Z, Kan S, Broz AK, Mower JP, Ruhlman TA, Jansen RK, Sloan DB, Havird JC. Genome copy number predicts extreme evolutionary rate variation in plant mitochondrial DNA. Proc Natl Acad Sci U S A 2024;121:e2317240121. [PMID: 38427600 PMCID: PMC10927533 DOI: 10.1073/pnas.2317240121] [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: 10/12/2023] [Accepted: 01/22/2024] [Indexed: 03/03/2024]  Open
10
Alves RM, de Abreu VAC, Oliveira RP, Almeida JVDA, de Oliveira MDM, Silva SR, Paschoal AR, de Almeida SS, de Souza PAF, Ferro JA, Miranda VFO, Figueira A, Domingues DS, Varani AM. Genomic decoding of Theobroma grandiflorum (cupuassu) at chromosomal scale: evolutionary insights for horticultural innovation. Gigascience 2024;13:giae027. [PMID: 38837946 PMCID: PMC11152179 DOI: 10.1093/gigascience/giae027] [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: 12/23/2023] [Revised: 03/21/2024] [Accepted: 05/08/2024] [Indexed: 06/07/2024]  Open
11
Huang L, Zeng Y, Li J, Deng Y, Su G, Zhang J. One hundred single-copy nuclear sequence markers for olive variety identification: a case of fingerprinting database construction in China. MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2023;43:86. [PMID: 38028815 PMCID: PMC10678893 DOI: 10.1007/s11032-023-01434-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2023] [Accepted: 11/20/2023] [Indexed: 12/01/2023]
12
Liu L, Chen M, Folk RA, Wang M, Zhao T, Shang F, Soltis DE, Li P. Phylogenomic and syntenic data demonstrate complex evolutionary processes in early radiation of the rosids. Mol Ecol Resour 2023;23:1673-1688. [PMID: 37449554 DOI: 10.1111/1755-0998.13833] [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: 03/10/2023] [Revised: 06/16/2023] [Accepted: 06/30/2023] [Indexed: 07/18/2023]
13
Hu J, Qiu S, Wang F, Li Q, Xiang CL, Di P, Wu Z, Jiang R, Li J, Zeng Z, Wang J, Wang X, Zhang Y, Fang S, Qiao Y, Ding J, Jiang Y, Xu Z, Chen J, Chen W. Functional divergence of CYP76AKs shapes the chemodiversity of abietane-type diterpenoids in genus Salvia. Nat Commun 2023;14:4696. [PMID: 37542034 PMCID: PMC10403556 DOI: 10.1038/s41467-023-40401-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Accepted: 07/26/2023] [Indexed: 08/06/2023]  Open
14
Guo X, Wang F, Fang D, Lin Q, Sahu SK, Luo L, Li J, Chen Y, Dong S, Chen S, Liu Y, Luo S, Guo Y, Liu H. The genome of Acorus deciphers insights into early monocot evolution. Nat Commun 2023;14:3662. [PMID: 37339966 PMCID: PMC10281966 DOI: 10.1038/s41467-023-38836-4] [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: 01/26/2022] [Accepted: 05/17/2023] [Indexed: 06/22/2023]  Open
15
Zhao J, Zhou X, Fang S, Zhu Z, Li Y, Yu H, He Z. Transcriptome-Based Study on the Phylogeny and Hybridization of Marattialean Ferns (Marattiaceae). PLANTS (BASEL, SWITZERLAND) 2023;12:2237. [PMID: 37375862 DOI: 10.3390/plants12122237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Revised: 05/07/2023] [Accepted: 05/31/2023] [Indexed: 06/29/2023]
16
Yuan J, Song Q. Polyploidy and diploidization in soybean. MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2023;43:51. [PMID: 37313224 PMCID: PMC10244302 DOI: 10.1007/s11032-023-01396-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2023] [Accepted: 05/22/2023] [Indexed: 06/15/2023]
17
Stull GW, Pham KK, Soltis PS, Soltis DE. Deep reticulation: the long legacy of hybridization in vascular plant evolution. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023;114:743-766. [PMID: 36775995 DOI: 10.1111/tpj.16142] [Citation(s) in RCA: 33] [Impact Index Per Article: 33.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Revised: 02/02/2023] [Accepted: 02/07/2023] [Indexed: 05/27/2023]
18
Yang L, Deng S, Zhu Y, Da Q. Comparative chloroplast genomics of 34 species in subtribe Swertiinae (Gentianaceae) with implications for its phylogeny. BMC PLANT BIOLOGY 2023;23:164. [PMID: 36977991 PMCID: PMC10044379 DOI: 10.1186/s12870-023-04183-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/22/2022] [Accepted: 03/20/2023] [Indexed: 06/18/2023]
19
Comparative transcriptome analyses of three Gentiana species provides signals for the molecular footprints of selection effects and the phylogenetic relationships. Mol Genet Genomics 2023;298:399-411. [PMID: 36592219 DOI: 10.1007/s00438-022-01991-2] [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: 11/08/2021] [Accepted: 12/27/2022] [Indexed: 01/03/2023]
20
Timilsena PR, Barrett CF, Piñeyro-Nelson A, Wafula EK, Ayyampalayam S, McNeal JR, Yukawa T, Givnish TJ, Graham SW, Pires JC, Davis JI, Ané C, Stevenson DW, Leebens-Mack J, Martínez-Salas E, Álvarez-Buylla ER, dePamphilis CW. Phylotranscriptomic Analyses of Mycoheterotrophic Monocots Show a Continuum of Convergent Evolutionary Changes in Expressed Nuclear Genes From Three Independent Nonphotosynthetic Lineages. Genome Biol Evol 2023;15:evac183. [PMID: 36582124 PMCID: PMC9887272 DOI: 10.1093/gbe/evac183] [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: 09/20/2021] [Revised: 12/13/2022] [Accepted: 12/18/2022] [Indexed: 12/31/2022]  Open
21
De Silva NP, Lee C, Battlay P, Fournier-Level A, Moore JL, Hodgins KA. Genome assembly of an Australian native grass species reveals a recent whole-genome duplication and biased gene retention of genes involved in stress response. Gigascience 2022;12:giad034. [PMID: 37171129 PMCID: PMC10176504 DOI: 10.1093/gigascience/giad034] [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: 06/24/2022] [Revised: 01/04/2023] [Accepted: 04/24/2023] [Indexed: 05/13/2023]  Open
22
Reginato M. A pipeline for assembling low copy nuclear markers from plant genome skimming data for phylogenetic use. PeerJ 2022;10:e14525. [PMID: 36523475 PMCID: PMC9745922 DOI: 10.7717/peerj.14525] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 11/15/2022] [Indexed: 12/12/2022]  Open
23
Ceriotti LF, Gatica-Soria L, Sanchez-Puerta MV. Cytonuclear coevolution in a holoparasitic plant with highly disparate organellar genomes. PLANT MOLECULAR BIOLOGY 2022;109:673-688. [PMID: 35359176 DOI: 10.1007/s11103-022-01266-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2021] [Accepted: 03/18/2022] [Indexed: 06/14/2023]
24
Santos MDL, de Resende MLV, Alves GSC, Huguet-Tapia JC, Resende MFRDJ, Brawner JT. Genome-Wide Identification, Characterization, and Comparative Analysis of NLR Resistance Genes in Coffea spp. FRONTIERS IN PLANT SCIENCE 2022;13:868581. [PMID: 35874027 PMCID: PMC9301388 DOI: 10.3389/fpls.2022.868581] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Accepted: 06/09/2022] [Indexed: 06/15/2023]
25
Sianta SA, Kay KM. Phylogenomic analysis does not support a classic but controversial hypothesis of progenitor-derivative origins for the serpentine endemic Clarkia franciscana. Evolution 2022;76:1246-1259. [PMID: 35403214 PMCID: PMC9322428 DOI: 10.1111/evo.14484] [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: 07/04/2021] [Revised: 02/25/2022] [Accepted: 03/04/2022] [Indexed: 01/21/2023]
26
Cooper BJ, Moore MJ, Douglas NA, Wagner WL, Johnson MG, Overson RP, Kinosian SP, McDonnell AJ, Levin RA, Raguso RA, Flores Olvera H, Ochoterena H, Fant JB, Skogen KA, Wickett NJ. Target enrichment and extensive population sampling help untangle the recent, rapid radiation of Oenothera sect. Calylophus. Syst Biol 2022:6588089. [PMID: 35583314 DOI: 10.1093/sysbio/syac032] [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: 03/16/2021] [Revised: 04/14/2022] [Accepted: 04/22/2022] [Indexed: 11/14/2022]  Open
27
Zhang L, Zhu X, Zhao Y, Guo J, Zhang T, Huang W, Huang J, Hu Y, Huang CH, Ma H. Phylotranscriptomics Resolves the Phylogeny of Pooideae and Uncovers Factors for Their Adaptive Evolution. Mol Biol Evol 2022;39:6521033. [PMID: 35134207 PMCID: PMC8844509 DOI: 10.1093/molbev/msac026] [Citation(s) in RCA: 29] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]  Open
28
Comparative Genome Analysis Reveals Phylogenetic Identity of Bacillus velezensis HNA3 and Genomic Insights into Its Plant Growth Promotion and Biocontrol Effects. Microbiol Spectr 2022;10:e0216921. [PMID: 35107331 PMCID: PMC8809340 DOI: 10.1128/spectrum.02169-21] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]  Open
29
Balbinott N, Rodrigues NF, Guzman FL, Turchetto-Zolet AC, Margis R. Perspectives in Myrtaceae evolution from plastomes and nuclear phylogenies. Genet Mol Biol 2022;45:e20210191. [PMID: 35088818 PMCID: PMC8796035 DOI: 10.1590/1678-4685-gmb-2021-0191] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2021] [Accepted: 11/20/2021] [Indexed: 05/05/2023]  Open
30
Chen S, Milne R, Zhou R, Meng K, Yin Q, Guo W, Ma Y, Mao K, Xu K, Kim YD, Do TV, Liao W, Fan Q. When tropical and subtropical congeners met: Multiple ancient hybridization events within Eriobotrya in the Yunnan-Guizhou Plateau, a tropical-subtropical transition area in China. Mol Ecol 2021;31:1543-1561. [PMID: 34910340 DOI: 10.1111/mec.16325] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2020] [Revised: 11/25/2021] [Accepted: 11/29/2021] [Indexed: 01/09/2023]
31
Bedoya AM, Leaché AD, Olmstead RG. Andean uplift, drainage basin formation, and the evolution of plants living in fast-flowing aquatic ecosystems in northern South America. THE NEW PHYTOLOGIST 2021;232:2175-2190. [PMID: 34318482 DOI: 10.1111/nph.17649] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Accepted: 07/20/2021] [Indexed: 06/13/2023]
32
Comparative transcriptomics provides a strategy for phylogenetic analysis and SSR marker development in Chaenomeles. Sci Rep 2021;11:16441. [PMID: 34385515 PMCID: PMC8361139 DOI: 10.1038/s41598-021-95776-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2021] [Accepted: 07/29/2021] [Indexed: 02/07/2023]  Open
33
Lundberg DS, Pramoj Na Ayutthaya P, Strauß A, Shirsekar G, Lo WS, Lahaye T, Weigel D. Host-associated microbe PCR (hamPCR) enables convenient measurement of both microbial load and community composition. eLife 2021;10:e66186. [PMID: 34292157 PMCID: PMC8387020 DOI: 10.7554/elife.66186] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2020] [Accepted: 07/19/2021] [Indexed: 12/26/2022]  Open
34
McDonnell AJ, Baker WJ, Dodsworth S, Forest F, Graham SW, Johnson MG, Pokorny L, Tate J, Wicke S, Wickett NJ. Exploring Angiosperms353: Developing and applying a universal toolkit for flowering plant phylogenomics. APPLICATIONS IN PLANT SCIENCES 2021;9:APS311443. [PMID: 34336400 PMCID: PMC8312743 DOI: 10.1002/aps3.11443] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Accepted: 06/25/2021] [Indexed: 05/30/2023]
35
Slimp M, Williams LD, Hale H, Johnson MG. On the potential of Angiosperms353 for population genomic studies. APPLICATIONS IN PLANT SCIENCES 2021;9:APS311419. [PMID: 34336401 PMCID: PMC8312745 DOI: 10.1002/aps3.11419] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Accepted: 03/15/2021] [Indexed: 05/11/2023]
36
Genau AC, Li Z, Renzaglia KS, Fernandez Pozo N, Nogué F, Haas FB, Wilhelmsson PKI, Ullrich KK, Schreiber M, Meyberg R, Grosche C, Rensing SA. HAG1 and SWI3A/B control of male germ line development in P. patens suggests conservation of epigenetic reproductive control across land plants. PLANT REPRODUCTION 2021;34:149-173. [PMID: 33839924 PMCID: PMC8128824 DOI: 10.1007/s00497-021-00409-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2020] [Accepted: 04/02/2021] [Indexed: 05/27/2023]
37
Genetic Polymorphism and Lineage of Pigeon Pea [Cajanus cajan (L.) Millsp.] inferred from Chloroplast and Nuclear DNA gene regions. ARABIAN JOURNAL FOR SCIENCE AND ENGINEERING 2021. [DOI: 10.1007/s13369-020-05036-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
38
Forsythe ES, Williams AM, Sloan DB. Genome-wide signatures of plastid-nuclear coevolution point to repeated perturbations of plastid proteostasis systems across angiosperms. THE PLANT CELL 2021;33:980-997. [PMID: 33764472 PMCID: PMC8226287 DOI: 10.1093/plcell/koab021] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Accepted: 01/16/2021] [Indexed: 05/05/2023]
39
Jost M, Samain MS, Marques I, Graham SW, Wanke S. Discordant Phylogenomic Placement of Hydnoraceae and Lactoridaceae Within Piperales Using Data From All Three Genomes. FRONTIERS IN PLANT SCIENCE 2021;12:642598. [PMID: 33912209 PMCID: PMC8072514 DOI: 10.3389/fpls.2021.642598] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Accepted: 03/17/2021] [Indexed: 05/08/2023]
40
Zajac N, Zoller S, Seppälä K, Moi D, Dessimoz C, Jokela J, Hartikainen H, Glover N. Gene Duplication and Gain in the Trematode Atriophallophorus winterbourni Contributes to Adaptation to Parasitism. Genome Biol Evol 2021;13:evab010. [PMID: 33484570 PMCID: PMC7936022 DOI: 10.1093/gbe/evab010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/10/2021] [Indexed: 01/10/2023]  Open
41
Restrepo-Montoya D, McClean PE, Osorno JM. Orthology and synteny analysis of receptor-like kinases "RLK" and receptor-like proteins "RLP" in legumes. BMC Genomics 2021;22:113. [PMID: 33568053 PMCID: PMC7874474 DOI: 10.1186/s12864-021-07384-w] [Citation(s) in RCA: 3] [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: 09/27/2019] [Accepted: 01/12/2021] [Indexed: 11/10/2022]  Open
42
Nge FJ, Kellermann J, Biffin E, Waycott M, Thiele KR. Historical biogeography of Pomaderris (Rhamnaceae): Continental vicariance in Australia and repeated independent dispersals to New Zealand. Mol Phylogenet Evol 2021;158:107085. [PMID: 33540078 DOI: 10.1016/j.ympev.2021.107085] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Revised: 01/14/2021] [Accepted: 01/22/2021] [Indexed: 10/22/2022]
43
Meng KK, Chen SF, Xu KW, Zhou RC, Li MW, Dhamala MK, Liao WB, Fan Q. Phylogenomic analyses based on genome-skimming data reveal cyto-nuclear discordance in the evolutionary history of Cotoneaster (Rosaceae). Mol Phylogenet Evol 2021;158:107083. [PMID: 33516804 DOI: 10.1016/j.ympev.2021.107083] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Revised: 12/16/2020] [Accepted: 01/12/2021] [Indexed: 11/19/2022]
44
Peng Z, Bredeson JV, Wu GA, Shu S, Rawat N, Du D, Parajuli S, Yu Q, You Q, Rokhsar DS, Gmitter FG, Deng Z. A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2020;104:1215-1232. [PMID: 32985030 PMCID: PMC7756384 DOI: 10.1111/tpj.14993] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Accepted: 09/17/2020] [Indexed: 05/19/2023]
45
Zhao N, Dong Q, Nadon BD, Ding X, Wang X, Dong Y, Liu B, Jackson SA, Xu C. Evolution of Homeologous Gene Expression in Polyploid Wheat. Genes (Basel) 2020;11:genes11121401. [PMID: 33255795 PMCID: PMC7759873 DOI: 10.3390/genes11121401] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 11/16/2020] [Accepted: 11/21/2020] [Indexed: 11/17/2022]  Open
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Forsythe ES, Nelson ADL, Beilstein MA. Biased Gene Retention in the Face of Introgression Obscures Species Relationships. Genome Biol Evol 2020;12:1646-1663. [PMID: 33011798 PMCID: PMC7533067 DOI: 10.1093/gbe/evaa149] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/10/2020] [Indexed: 12/13/2022]  Open
47
Yang C, Ma Y, Cheng B, Zhou L, Yu C, Luo L, Pan H, Zhang Q. Molecular Evidence for Hybrid Origin and Phenotypic Variation of Rosa Section Chinenses. Genes (Basel) 2020;11:genes11090996. [PMID: 32854427 PMCID: PMC7564265 DOI: 10.3390/genes11090996] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Revised: 08/01/2020] [Accepted: 08/18/2020] [Indexed: 11/18/2022]  Open
48
Mabry ME, Brose JM, Blischak PD, Sutherland B, Dismukes WT, Bottoms CA, Edger PP, Washburn JD, An H, Hall JC, McKain MR, Al‐Shehbaz I, Barker MS, Schranz ME, Conant GC, Pires JC. Phylogeny and multiple independent whole-genome duplication events in the Brassicales. AMERICAN JOURNAL OF BOTANY 2020;107:1148-1164. [PMID: 32830865 PMCID: PMC7496422 DOI: 10.1002/ajb2.1514] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2019] [Accepted: 05/05/2020] [Indexed: 05/04/2023]
49
Wen J, Yu Y, Xie DF, Peng C, Liu Q, Zhou SD, He XJ. A transcriptome-based study on the phylogeny and evolution of the taxonomically controversial subfamily Apioideae (Apiaceae). ANNALS OF BOTANY 2020;125:937-953. [PMID: 32016402 PMCID: PMC7218814 DOI: 10.1093/aob/mcaa011] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2019] [Accepted: 01/28/2020] [Indexed: 05/26/2023]
50
Granados Mendoza C, Jost M, Hágsater E, Magallón S, van den Berg C, Lemmon EM, Lemmon AR, Salazar GA, Wanke S. Target Nuclear and Off-Target Plastid Hybrid Enrichment Data Inform a Range of Evolutionary Depths in the Orchid Genus Epidendrum. FRONTIERS IN PLANT SCIENCE 2020;10:1761. [PMID: 32063915 PMCID: PMC7000662 DOI: 10.3389/fpls.2019.01761] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2019] [Accepted: 12/16/2019] [Indexed: 05/12/2023]
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