| Year |
Citation |
Score |
| 2024 |
Harrison MC, Ubbelohde EJ, LaBella AL, Opulente DA, Wolters JF, Zhou X, Shen XX, Groenewald M, Hittinger CT, Rokas A. Machine learning enables identification of an alternative yeast galactose utilization pathway. Proceedings of the National Academy of Sciences of the United States of America. 121: e2315314121. PMID 38669185 DOI: 10.1073/pnas.2315314121 |
0.331 |
|
| 2024 |
Opulente DA, LaBella AL, Harrison MC, Wolters JF, Liu C, Li Y, Kominek J, Steenwyk JL, Stoneman HR, VanDenAvond J, Miller CR, Langdon QK, Silva M, Gonçalves C, Ubbelohde EJ, ... ... Zhou X, et al. Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts. Science (New York, N.Y.). 384: eadj4503. PMID 38662846 DOI: 10.1126/science.adj4503 |
0.345 |
|
| 2024 |
Li F, Hou Z, Xu S, Han D, Li B, Hu H, Liu J, Cai S, Gan Z, Gu Y, Zhang X, Zhou X, Wang S, Zhao J, Mei Y, et al. Haplotype-resolved genomes of octoploid species in Phyllanthaceae family reveal a critical role for polyploidization and hybridization in speciation. The Plant Journal : For Cell and Molecular Biology. PMID 38606539 DOI: 10.1111/tpj.16767 |
0.393 |
|
| 2024 |
Sun L, David KT, Wolters JF, Karlen SD, Gonçalves C, Opulente DA, LaBella AL, Groenewald M, Zhou X, Shen XX, Rokas A, Hittinger CT. Functional and evolutionary integration of a fungal gene with a bacterial operon. Molecular Biology and Evolution. PMID 38415839 DOI: 10.1093/molbev/msae045 |
0.382 |
|
| 2023 |
Li X, Yu S, Cheng Z, Chang X, Yun Y, Jiang M, Chen X, Wen X, Li H, Zhu W, Xu S, Xu Y, Wang X, Zhang C, Wu Q, ... ... Zhou X, et al. Origin and evolution of the triploid cultivated banana genome. Nature Genetics. PMID 38082204 DOI: 10.1038/s41588-023-01589-3 |
0.725 |
|
| 2023 |
Sun L, David KT, Wolters JF, Karlen SD, Gonçalves C, Opulente DA, LaBella AL, Groenewald M, Zhou X, Shen XX, Rokas A, Hittinger CT. Functional and evolutionary integration of a fungal gene with a bacterial operon. Biorxiv : the Preprint Server For Biology. PMID 38045280 DOI: 10.1101/2023.11.21.568075 |
0.381 |
|
| 2023 |
Gonçalves C, Harrison MC, Steenwyk JL, Opulente DA, LaBella AL, Wolters JF, Zhou X, Shen XX, Groenewald M, Hittinger CT, Rokas A. Diverse signatures of convergent evolution in cacti-associated yeasts. Biorxiv : the Preprint Server For Biology. PMID 37745407 DOI: 10.1101/2023.09.14.557833 |
0.422 |
|
| 2023 |
Li D, Lin HY, Wang X, Bi B, Gao Y, Shao L, Zhang R, Liang Y, Xia Y, Zhao YP, Zhou X, Zhang L. Genome and whole-genome resequencing of Cinnamomum camphora elucidate its dominance in subtropical urban landscapes. Bmc Biology. 21: 192. PMID 37697363 DOI: 10.1186/s12915-023-01692-1 |
0.623 |
|
| 2023 |
Steenwyk JL, Knowles S, Bastos RW, Balamurugan C, Rinker D, Mead ME, Roberts CD, Raja HA, Li Y, Colabardini AC, de Castro PA, Dos Reis TF, Canóvas D, Sanchez RL, Lagrou K, ... Zhou X, et al. Evolutionary origin, population diversity, and diagnostics for a cryptic hybrid pathogen. Biorxiv : the Preprint Server For Biology. PMID 37461539 DOI: 10.1101/2023.07.03.547508 |
0.405 |
|
| 2023 |
Yang P, Ling XY, Zhou XF, Chen YX, Wang TT, Lin XJ, Zhao YY, Ye YS, Huang LX, Sun YW, Qi YX, Ma DM, Zhan RT, Huang XS, Yang JF. Comparing genomes of Fructus Amomi-producing species reveals genetic basis of volatile terpenoid divergence. Plant Physiology. PMID 37427874 DOI: 10.1093/plphys/kiad400 |
0.459 |
|
| 2023 |
Opulente DA, LaBella AL, Harrison MC, Wolters JF, Liu C, Li Y, Kominek J, Steenwyk JL, Stoneman HR, VanDenAvond J, Miller CR, Langdon QK, Silva M, Gonçalves C, Ubbelohde EJ, ... ... Zhou X, et al. Genomic and ecological factors shaping specialism and generalism across an entire subphylum. Biorxiv : the Preprint Server For Biology. PMID 37425695 DOI: 10.1101/2023.06.19.545611 |
0.322 |
|
| 2023 |
Steenwyk JL, Li Y, Zhou X, Shen XX, Rokas A. Incongruence in the phylogenomics era. Nature Reviews. Genetics. PMID 37369847 DOI: 10.1038/s41576-023-00620-x |
0.395 |
|
| 2022 |
He Q, Li J, Liu Q, Li Y, Liao X, Zhou J, Zhou X. Complete genome sequence resource of CL1 causing soft rot disease in (Wampee) in China. Plant Disease. PMID 36444142 DOI: 10.1094/PDIS-10-22-2504-A |
0.472 |
|
| 2022 |
Xu M, Gao Q, Jiang M, Wang W, Hu J, Chang X, Liu D, Liang Y, Jiang Y, Chen F, Li C, Huang H, Chen F, Li F, Trigiano RN, ... Zhou X, et al. The nearly complete genome sequence of Jasminum sambac reveals the molecular mechanism underlying the accumulation of jasmonates. Journal of Experimental Botany. PMID 36433929 DOI: 10.1093/jxb/erac464 |
0.685 |
|
| 2022 |
Li Y, Liu H, Steenwyk JL, LaBella AL, Harrison MC, Groenewald M, Zhou X, Shen XX, Zhao T, Hittinger CT, Rokas A. Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum. Current Biology : Cb. PMID 36334587 DOI: 10.1016/j.cub.2022.10.025 |
0.542 |
|
| 2022 |
Yan J, Lin N, Wang X, Chen X, Wang H, Lin Q, Zhou X, Zhang L, Liao L. Markerless gene deletion in based on its natural transformation competence. Frontiers in Microbiology. 13: 977580. PMID 36177460 DOI: 10.3389/fmicb.2022.977580 |
0.377 |
|
| 2022 |
Yan T, Zhou X, Li J, Li G, Zhao Y, Wang H, Li H, Nie Y, Li Y. FoCupin1, a Cupin_1 domain-containing protein, is necessary for the virulence of f. sp. tropical race 4. Frontiers in Microbiology. 13: 1001540. PMID 36110302 DOI: 10.3389/fmicb.2022.1001540 |
0.335 |
|
| 2022 |
Yang P, Zhao HY, Wei JS, Zhao YY, Lin XJ, Su J, Li FP, Li M, Ma DM, Tan XK, Liang HL, Sun YW, Zhan RT, He GZ, Zhou XF, et al. Chromosome-level genome assembly and functional characterization of terpene synthases provide new insights into the volatile terpenoid biosynthesis of Wurfbainia villosa. The Plant Journal : For Cell and Molecular Biology. PMID 36071028 DOI: 10.1111/tpj.15968 |
0.544 |
|
| 2022 |
Liang Y, Li F, Gao Q, Jin C, Dong L, Wang Q, Xu M, Sun F, Bi B, Zhao P, Li S, Ruan J, Zhou X, Zhang L, Wang J. The genome of Eustoma grandiflorum reveals the whole-genome triplication event contributing to ornamental traits in cultivated lisianthus. Plant Biotechnology Journal. PMID 35880287 DOI: 10.1111/pbi.13899 |
0.645 |
|
| 2022 |
Chen S, Hu M, Hu A, Xue Y, Wang S, Liu F, Li C, Zhou X, Zhou J. The integration host factor regulates multiple virulence pathways in bacterial pathogen Dickeya zeae MS2. Molecular Plant Pathology. PMID 35819797 DOI: 10.1111/mpp.13244 |
0.322 |
|
| 2022 |
Zhou J, Hu M, Hu A, Li C, Ren X, Tao M, Xue Y, Chen S, Tang C, Xu Y, Zhang L, Zhou X. Isolation and Genome Analysis of sp. nov. and , Two New Pathogens of Taro. Frontiers in Plant Science. 13: 852750. PMID 35557713 DOI: 10.3389/fpls.2022.852750 |
0.313 |
|
| 2022 |
Shi Y, Yang X, Ye X, Feng J, Cheng T, Zhou X, Liu DX, Xu L, Wang J. The Methyltransferase HemK Regulates the Virulence and Nutrient Utilization of the Phytopathogenic Bacterium Subsp. . International Journal of Molecular Sciences. 23. PMID 35409293 DOI: 10.3390/ijms23073931 |
0.3 |
|
| 2022 |
Wang H, Liao L, Zhou X, Dong L, Lin X, Zhang L. Genome Sequence Resource of a Quorum-Quenching Biocontrol Agent, HS-18. Molecular Plant-Microbe Interactions : Mpmi. MPMI12210310A. PMID 35285671 DOI: 10.1094/MPMI-12-21-0310-A |
0.318 |
|
| 2021 |
Haase MAB, Kominek J, Opulente DA, Shen XX, LaBella AL, Zhou X, DeVirgilio J, Hulfachor AB, Kurtzman CP, Rokas A, Hittinger CT. Repeated horizontal gene transfer of GALactose metabolism genes violates Dollo's law of irreversible loss. Genetics. 217. PMID 33724406 DOI: 10.1093/genetics/iyaa012 |
0.415 |
|
| 2021 |
Gao RF, Wang JY, Liu KW, Yoshida K, Hsiao YY, Shi YX, Tsai KC, Chen YY, Mitsuda N, Liang CK, Wang ZW, Wang Y, Zhang DY, Huang L, Zhao X, ... Zhou XF, et al. Comparative analysis of genomes reveals oomycete pathogenesis in crops. Heliyon. 7: e06317. PMID 33665461 DOI: 10.1016/j.heliyon.2021.e06317 |
0.543 |
|
| 2020 |
Yang L, Su D, Chang X, Foster CSP, Sun L, Huang CH, Zhou X, Zeng L, Ma H, Zhong B. Phylogenomic Insights into Deep Phylogeny of Angiosperms Based on Broad Nuclear Gene Sampling. Plant Communications. 1: 100027. PMID 33367231 DOI: 10.1016/j.xplc.2020.100027 |
0.704 |
|
| 2020 |
Hatmaker EA, Zhou X, Mead ME, Moon H, Yu JH, Rokas A. Revised Transcriptome-Based Gene Annotation for Aspergillus flavus Strain NRRL 3357. Microbiology Resource Announcements. 9. PMID 33273000 DOI: 10.1128/MRA.01155-20 |
0.322 |
|
| 2020 |
Steenwyk JL, Mead ME, de Castro PA, Valero C, Damasio A, Dos Santos RAC, Labella AL, Li Y, Knowles SL, Raja HA, Oberlies NH, Zhou X, Cornely OA, Fuchs F, Koehler P, et al. Genomic and phenotypic analysis of COVID-19-associated pulmonary aspergillosis isolates of . Biorxiv : the Preprint Server For Biology. PMID 33173866 DOI: 10.1101/2020.11.06.371971 |
0.338 |
|
| 2020 |
Shen XX, Steenwyk JL, LaBella AL, Opulente DA, Zhou X, Kominek J, Li Y, Groenewald M, Hittinger CT, Rokas A. Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota. Science Advances. 6. PMID 33148650 DOI: 10.1126/sciadv.abd0079 |
0.468 |
|
| 2019 |
Zhang L, Chen F, Zhang X, Li Z, Zhao Y, Lohaus R, Chang X, Dong W, Ho SYW, Liu X, Song A, Chen J, Guo W, Wang Z, Zhuang Y, ... ... Zhou X, et al. The water lily genome and the early evolution of flowering plants. Nature. PMID 31853069 DOI: 10.1038/S41586-019-1852-5 |
0.714 |
|
| 2019 |
Liang Z, Huang L, He F, Zhou X, Shi Z, Zhou J, Chen Y, Lv M, Chen Y, Zhang LH. A Substrate-Activated Efflux Pump, DesABC, Confers Zeamine Resistance to Dickeya zeae. Mbio. 10. PMID 31138747 DOI: 10.1128/mBio.00713-19 |
0.353 |
|
| 2019 |
Steenwyk JL, Opulente DA, Kominek J, Shen XX, Zhou X, Labella AL, Bradley NP, Eichman BF, Čadež N, Libkind D, DeVirgilio J, Hulfachor AB, Kurtzman CP, Hittinger CT, Rokas A. Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts. Plos Biology. 17: e3000255. PMID 31112549 DOI: 10.1371/Journal.Pbio.3000255 |
0.375 |
|
| 2019 |
Wang Y, Zhou X, Wang L, Liu X, Yang D, Rokas A. Gene Selection and Evolutionary Modeling Affect Phylogenomic Inference of Neuropterida Based on Transcriptome Data. International Journal of Molecular Sciences. 20. PMID 30832228 DOI: 10.3390/Ijms20051072 |
0.304 |
|
| 2019 |
Kominek J, Doering DT, Opulente DA, Shen XX, Zhou X, DeVirgilio J, Hulfachor AB, Groenewald M, Mcgee MA, Karlen SD, Kurtzman CP, Rokas A, Hittinger CT. Eukaryotic Acquisition of a Bacterial Operon. Cell. PMID 30799038 DOI: 10.1016/J.Cell.2019.01.034 |
0.433 |
|
| 2018 |
Shen XX, Opulente DA, Kominek J, Zhou X, Steenwyk JL, Buh KV, Haase MAB, Wisecaver JH, Wang M, Doering DT, Boudouris JT, Schneider RM, Langdon QK, Ohkuma M, Endoh R, et al. Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum. Cell. PMID 30415838 DOI: 10.1016/J.Cell.2018.10.023 |
0.447 |
|
| 2018 |
Krause DJ, Kominek J, Opulente DA, Shen XX, Zhou X, Langdon QK, DeVirgilio J, Hulfachor AB, Kurtzman CP, Rokas A, Hittinger CT. Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts. Proceedings of the National Academy of Sciences of the United States of America. PMID 30297402 DOI: 10.1073/Pnas.1806268115 |
0.392 |
|
| 2018 |
Wang J, Zhao Y, Zhou X, Hiebert SW, Liu Q, Shyr Y. Nascent RNA sequencing analysis provides insights into enhancer-mediated gene regulation. Bmc Genomics. 19: 633. PMID 30139328 DOI: 10.1186/S12864-018-5016-Z |
0.305 |
|
| 2016 |
Shen XX, Zhou X, Kominek J, Kurtzman CP, Hittinger CT, Rokas A. Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data. G3 (Bethesda, Md.). PMID 27672114 DOI: 10.1534/G3.116.034744 |
0.444 |
|
| 2016 |
Zhou X, Peris D, Kominek J, Kurtzman CP, Hittinger CT, Rokas A. in silico Whole Genome Sequencer & Analyzer (iWGS): A Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies. G3 (Bethesda, Md.). PMID 27638685 DOI: 10.1534/G3.116.034249 |
0.368 |
|
| 2016 |
Ren R, Sun Y, Zhao Y, Geiser D, Ma H, Zhou X. Phylogenetic Resolution of Deep Eukaryotic and Fungal Relationships Using Highly Conserved Low-Copy Nuclear Genes. Genome Biology and Evolution. PMID 27604879 DOI: 10.1093/Gbe/Evw196 |
0.702 |
|
| 2015 |
Wang Y, Zhou X, Yang D, Rokas A. A genome-scale investigation of incongruence in Culicidae mosquitoes. Genome Biology and Evolution. PMID 26608059 DOI: 10.1093/Gbe/Evv235 |
0.43 |
|
| 2015 |
Neafsey DE, Waterhouse RM, Abai MR, Aganezov SS, Alekseyev MA, Allen JE, Amon J, Arcà B, Arensburger P, Artemov G, Assour LA, Basseri H, Berlin A, Birren BW, Blandin SA, ... ... Zhou X, et al. Mosquito genomics. Highly evolvable malaria vectors: the genomes of 16 Anopheles mosquitoes. Science (New York, N.Y.). 347: 1258522. PMID 25554792 DOI: 10.1126/Science.1258522 |
0.501 |
|
| 2014 |
Zhou X, Rinker DC, Pitts RJ, Rokas A, Zwiebel LJ. Divergent and conserved elements comprise the chemoreceptive repertoire of the nonblood-feeding mosquito Toxorhynchites amboinensis. Genome Biology and Evolution. 6: 2883-96. PMID 25326137 DOI: 10.1093/Gbe/Evu231 |
0.305 |
|
| 2013 |
Chintapalli SV, Bhardwaj G, Babu J, Hadjiyianni L, Hong Y, Todd GK, Boosalis CA, Zhang Z, Zhou X, Ma H, Anishkin A, van Rossum DB, Patterson RL. Reevaluation of the evolutionary events within recA/RAD51 phylogeny. Bmc Genomics. 14: 240. PMID 23574621 DOI: 10.1186/1471-2164-14-240 |
0.511 |
|
| 2010 |
Zhou X, Lin Z, Ma H. Phylogenetic detection of numerous gene duplications shared by animals, fungi and plants. Genome Biology. 11: R38. PMID 20370904 DOI: 10.1186/Gb-2010-11-4-R38 |
0.735 |
|
| 2009 |
Feng B, Li L, Zhou X, Stanley B, Ma H. Analysis of the Arabidopsis floral proteome: detection of over 2 000 proteins and evidence for posttranslational modifications. Journal of Integrative Plant Biology. 51: 207-23. PMID 19200160 DOI: 10.1111/J.1744-7909.2008.00787.X |
0.627 |
|
| 2008 |
Zhou X, Ma H. Evolutionary history of histone demethylase families: distinct evolutionary patterns suggest functional divergence. Bmc Evolutionary Biology. 8: 294. PMID 18950507 DOI: 10.1186/1471-2148-8-294 |
0.356 |
|
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