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| 1 | Haplotype-resolved genome assembly and allele- specific gene expression in cultivated ginger显示文摘Ginger(Zingiber officinale)is one of the most valued spice plants worldwide;it is prized for its culinary and folk medicinal applications and is therefore of high economic and cultural importance.Here,we present a haplotype-resolved,chromosome-scale assembly for diploid ginger anchored to 11 pseudochromosome pairs with a total length of 3.1 Gb.Remarkable structural variation was identified between haplotypes,and two inversions larger than 15Mb on chromosome 4 may be associated with ginger infertility.We performed a comprehensive,spatiotemporal,genome-wide analysis of allelic expression patterns,revealing that most alleles are coordinately expressed.The alleles that exhibited the largest differences in expression showed closer proximity to transposable elements,greater coding sequence divergence,more relaxed selection pressure,and more transcription factor binding site differences.We also predicted the transcription factors potentially regulating 6-gingerol biosynthesis.Our allele-aware assembly provides a powerful platform for future functional genomics,molecular breeding,and genome editing in ginger. | Shi-Ping Cheng Kai-Hua Jia Hui Liu Ren-Gang Zhang Zhi-Chao Li Shan-Shan Zhou Tian-Le Shi Ai-Chu Ma Cong-Wen Yu Chan Gao Guang-Lei Cao Wei Zhao Shuai Nie Jing-Fang Guo Si-Qian Jiao Xue-Chan Tian Xue-Mei Yan Yu-Tao Bao Quan-Zheng Yun Xin-Zhu Wang Ilga Porth Yousry AEl-Kassaby Xiao-Ru Wang Zhen Li Yves Van de Peer Jian-Feng Mao | 2021 | Horticulture Research2021，8，1： | 3 |
| 2 | Gapless genome assembly of azalea and multi-omics investigation into divergence between two species with distinct f lower color显示文摘The genus Rhododendron(Ericaceae),with more than 1000 species highly diverse in f lower color,is providing distinct ornamental values and a model system for f lower color studies.Here,we investigated the divergence between two parental species with different f lower color widely used for azalea breeding.Gapless genome assembly was generated for the yellow-f lowered azalea,Rhododendron molle.Comparative genomics found recent proliferation of long terminal repeat retrotransposons(LTR-RTs),especially Gypsy,has resulted in a 125 Mb(19%)genome size increase in species-specific regions,and a significant amount of dispersed gene duplicates(13402)and pseudogenes(17437).Metabolomic assessment revealed that yellow f lower coloration is attributed to the dynamic changes of carotenoids/f lavonols biosynthesis and chlorophyll degradation.Time-ordered gene co-expression networks(TO-GCNs)and the comparison confirmed the metabolome and uncovered the specific gene regulatory changes underpinning the distinct f lower pigmentation.B3 and ERF TFs were found dominating the gene regulation of carotenoids/f lavonols characterized pigmentation in R.molle,while WRKY,ERF,WD40,C2H2,and NAC TFs collectively regulated the anthocyanins characterized pigmentation in the red-f lowered R simsii.This study employed a multi-omics strategy in disentangling the complex divergence between two important azaleas and provided references for further functional genetics and molecular breeding. | Shuai Nie Shi-Wei Zhao Tian-Le Shi Wei Zhao Ren-Gang Zhang Xue-Chan Tian Jing-Fang Guo Xue-Mei Yan Yu-Tao Bao Zhi-Chao Li Lei Kong Hai-Yao Ma Zhao-Yang Chen Hui Liu Yousry AEl-Kassaby Ilga Porth Fu-Sheng Yang Jian-Feng Mao | 2023 | Horticulture Research2023，10，1： | 2 |
| 3 | Alfin1 transcription factor overexpression enhances plant root growth under normal and saline conditions and improves salt tolerance in alfalfa显示文摘 | Ilga Winicov | 2000 | Planta2000，，3： | 1 |
| 4 | Alfin1 transcription factor overexpression enhances plant root growth under normol and saline conditions and improves salt tolerance in alfalfa显示文摘 | Ilga Winicov | 2000 | Planta2000，210，： | 1 |
| 5 | The MsPRP2 promoter enables strong heterologous gene expression in a root-specific manner and is enhanced by overexpression of Alfin1显示文摘 | Ilga Winicov Babu Valtiyodan Lingru Xue | 2004 | Planta2004，219，： | 1 |
| 6 | Three-dimensional evaluation of TMJ parameters in Class Ⅱ and Class Ⅲ patients显示文摘 | Zane Krisjane Ilga Urtane Gaida Krumian | 2009 | Stomatologija Baltic Dental and Maxillofacial Journal2009，11，： | 1 |
| 7 | Alfinl, a novel zinc-fin- ger protein in alfalfa roots that binds to promoter elements in the salt-inducible MsPRP2 gene显示文摘 | Bsdtola D R Vaijaynti V P Ilga W | 1998 | Plant Molecular Biolo gy1998，38，： | 1 |
| 8 | Alfinl,A novel zinc-finger protein in alfalfa root that binds to promoter elements in the saltinducible MsPRP2 gene显示文摘 | DHUNDY R B VAIJAYNTI V P ILGA W | 1998 | Plant Molecular Biology1998，38，： | 1 |
| 9 | Transgenic Overexpression of the Transcription Factor Alfinl Enhances Expression of the Endogenous MsPRP2 gene in Alfalfa and Improves Salinity Tolerance of the Plants 显示文摘 | Ilga Winicovi Dhundy R Bastola | 1999 | Plant Physiol1999，120，： | 1 |
| 10 | Transgenic overexpressing of the transcription factor Alfinl enhances expressing of the endogenous MsPRP2 gene in alfalfa and improves salinity tolerance of the plant显示文摘 | ILGA W DHUNDY R B | 1999 | Plant Physiology1999，120，6： | 1 |
| 11 | The MsPRP2 promoter enables strong heterologous gene expression in a root-specific manner and is enhanced by overexpression of Alfinl显示文摘 | ILGA W BABU V XUE L R KENNETH J H | 2004 | Planta2004，219，： | 1 |
| 12 | Transcriptional and post-transcriptional activation of genes in salt-tolerance alfalfa cells显示文摘 | Winicov Ilga Muthu Krishnan | 1996 | Planta1996，200，4： | 1 |
| 13 | Condylar and mandibular morpho- logical criteria in the 2D and 3D MSCT imaging for patients with Class II division 1 subdivision malocclusion 显示文摘 | Zane K Ilga U Gaida K | 2007 | Stomatologija2007，9，3： | 1 |
| 14 | Alfin1 transcription factor overexpression enhances plant root growth under normal and saline conditions and improves salt tolerance in alfalfa 显示文摘 | Ilga Winicov | 2000 | Planta2000，210，3： | 1 |
| 15 | Three --dimensional evaluation of TMJ parameters in Class II and Class III patients 显示文摘 | Zane Krisjane Ilga Urtane Gaida Krumian | 2009 | Stomatologija Baltic Dental and Max- illofacial Journal2009，11，1： | 1 |
| 16 | Aryl zinc species by microwave assisted grignard formation-transmetalation sequence:application in the negishi coupling显示文摘 | Ilga M Edgars S | 2005 | Tetrahedron2005，61，11： | 1 |
| 17 | Alfin1, a novel zinc-finger protein in alfalfa roots that binds to promoter elements in the salt-inducible MsPRP2 gene显示文摘 | Dhundy R. Bastola Vaijaynti V. Pethe Ilga Winicov | 1998 | Plant Molecular Biology1998，，6： | 1 |
| 18 | Chromosome-scale assembly and evolution of the tetraploid Salvia splendens (Lamiaceae) genome显示文摘Polyploidization plays a key role in plant evolution,but the forces driving the fate of homoeologs in polyploid genomes,i.e.,paralogs resulting from a whole-genome duplication(WGD)event,remain to be elucidated.Here,we present a chromosome-scale genome assembly of tetraploid scarlet sage(Salvia splendens),one of the most diverse ornamental plants.We found evidence for three WGD events following an older WGD event shared by most eudicots(theγevent).A comprehensive,spatiotemporal,genome-wide analysis of homoeologs from the most recent WGD unveiled expression asymmetries,which could be associated with genomic rearrangements,transposable element proximity discrepancies,coding sequence variation,selection pressure,and transcription factor binding site differences.The observed differences between homoeologs may reflect the first step toward sub-and/or neofunctionalization.This assembly provides a powerful tool for understanding WGD and gene and genome evolution and is useful in developing functional genomics and genetic engineering strategies for scarlet sage and other Lamiaceae species. | Kai-Hua Jia Hui Liu Ren-Gang Zhang Jie Xu Shan-Shan Zhou Si-Qian Jiao Xue-Mei Yan Xue-Chan Tian Tian-Le Shi Hang Luo Zhi-Chao Li Yu-Tao Bao Shuai Nie Jing-Fang Guo Ilga Porth Yousry AEl-Kassaby Xiao-Ru Wang Charles Chen Yves Van de Peer Wei Zhao Jian-Feng Mao | 2021 | Horticulture Research2021，8，1： | 0 |
| 19 | Cooperation and Collaboration Impact on Policy Development: HIV/AIDS Policy in Latvia显示文摘This article describes a case study of trends of governance approach implementation in the health policy development and implementation process in Latvia, in the state in transition, or “new democracy”. Latvia became an independent democratic state in 1991, regaining its freedom after being part of the Soviet Union for 50 years. As the three Baltic States (Latvia, Lithuania, and Estonia) had a common history and starting point in the health reform implementation, the data of Human Immunodeficiency Virus (HIV) incidence and implemented policy steps were analyzed and compared of all the three states. The research provides insight into the HIV/Acquired Immune Deficiency Syndrome (AIDS) situation in Latvia from the time when the first patient was diagnosed till nowadays, describing the initiatives that were implemented to combat the spread of HIV infection and analyze the impact of different stakeholders in the policy development and implementation process. Although the main reform implementation actors in Latvia were Non-Governmental Organizations (NGOs) or patient organizations by performing cooperation and collaboration with all the actors involved in the policy development and implementation process, more profound investigation reveals that major impact came from “old democracies”, international and global organizations as well as from physicians and commercial powers by providing a suitable environment for the reform development. | Ieva Bikava Ilga Kreituse | 2019 | Journal of Sociology Study2019，9，3： | 0 |
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