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  1. AU="Zhongfu Lu"
  2. AU="Lo, Hong-Yip"
  3. AU="Ziman Xiong"
  4. AU="Oakes, Allison H"
  5. AU="Ma, Shaotong"
  6. AU="Zang, Lili"
  7. AU="Adams Brian D"
  8. AU="Maria Papaioannou"
  9. AU="Kollia, Georgia"
  10. AU="Auxiette, Catherine"
  11. AU="Guzmán, Luis"
  12. AU="Alipour, Elnaz"
  13. AU="Queiroz, Dayanna Joyce Marques"
  14. AU="Ramamurthy, Santosh"
  15. AU="Xueying Huang"
  16. AU="Cromwell, Howard C"
  17. AU="Spence, John C H"
  18. AU="Chapinal, Libertad"
  19. AU=Rohaim Mohammed A AU=Rohaim Mohammed A
  20. AU=Hempel Cornelius

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  1. Artikel ; Online: Genome-wide characterization and expression analysis of the MLO gene family sheds light on powdery mildew resistance in Lagenaria siceraria

    Jian Wang / Xiaohua Wu / Ying Wang / Xinyi Wu / Baogen Wang / Zhongfu Lu / Guojing Li

    Heliyon, Vol 9, Iss 4, Pp e14624- (2023)

    2023  

    Abstract: MLO (mildew locus O) genes play a vital role in plant disease defense system, especially powdery mildew (PM). Lagenaria siceraria is a distinct Cucurbitaceae crop, and PM is one of the most serious diseases threatening crop production and quality. ... ...

    Abstract MLO (mildew locus O) genes play a vital role in plant disease defense system, especially powdery mildew (PM). Lagenaria siceraria is a distinct Cucurbitaceae crop, and PM is one of the most serious diseases threatening crop production and quality. Although MLOs have been exploited in many Cucurbitaceae species, genome-wide mining of MLO gene family in bottle gourd has not been surveyed yet. Here we identified 16 MLO genes in our recently assembled L. siceraria genome. A total of 343 unique MLO protein sequences from 20 species were characterized and compared to deduce a generally high level of purifying selection and the occurrence of regions related to candidate susceptibility factors in the evolutional divergence. LsMLOs were clustered in six clades containing seven conserved transmembrane domains and 10 clade-specific motifs along with deletion and variation. Three genes (LsMLO3, LsMLO6, and LsMLO13) in clade V showed high sequence identity with orthologues involved in PM susceptibility. The expression pattern of LsMLOs was tissue-specific but not cultivar-specific. Furthermore, it was indicated by qRT-PCR and RNA-seq that LsMLO3 and LsMLO13 were highly upregulated in response to PM stress. Subsequent sequence analysis revealed the structural deletion of LsMLO13 and a single nonsynonymous substitution of LsMLO3 in the PM-resistant genotype. Taken all together, it is speculated that LsMLO13 is likely a major PM susceptibility factor. The results of this study provide new insights into MLO family genes in bottle gourd and find a potential candidate S gene for PM tolerance breeding.
    Schlagwörter Bottle gourd ; MLO family ; Phylogenetic analysis ; Powdery mildew ; Expression analysis ; Science (General) ; Q1-390 ; Social sciences (General) ; H1-99
    Thema/Rubrik (Code) 572
    Sprache Englisch
    Erscheinungsdatum 2023-04-01T00:00:00Z
    Verlag Elsevier
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  2. Artikel: Development of Insertion and Deletion Markers for Bottle Gourd Based on Restriction Site-associated DNA Sequencing Data

    WU, Xinyi / Baogen WANG / Guojing LI / Pei XU / Xiaohua WU / Zhongfu LU

    Chinese Society for Horticultural Science Horticultural plant journal. 2017 Jan., v. 3, no. 1

    2017  

    Abstract: Bottle gourd is an important cucurbit crop worldwide. To provide more available molecular markers for this crop, a bioinformatic approach was employed to develop insertion–deletions (InDels) markers in bottle gourd based on restriction site-associated ... ...

    Abstract Bottle gourd is an important cucurbit crop worldwide. To provide more available molecular markers for this crop, a bioinformatic approach was employed to develop insertion–deletions (InDels) markers in bottle gourd based on restriction site-associated DNA sequencing (RAD-Seq) data. A total of 892 Indels were predicted, with the length varying from 1 bp to 167 bp. Single-nucleotide InDels were the predominant types of InDels. To validate these InDels, PCR primers were designed from 162 loci where InDels longer than 2 bp were predicated. A total of 112 InDels were found to be polymorphic among 9 bottle gourd accessions under investigation. The rate of prediction accuracy was thus at a high level of 72.7%. DNA fingerprinting for 4 cultivars were performed using 8 selected Indels markers, demonstrating the usefulness of these markers.
    Schlagwörter bioinformatics ; cultivars ; DNA fingerprinting ; DNA primers ; genetic markers ; Lagenaria siceraria ; loci ; polymerase chain reaction ; prediction ; sequence analysis
    Sprache Englisch
    Erscheinungsverlauf 2017-01
    Umfang p. 13-16.
    Erscheinungsort Elsevier B.V.
    Dokumenttyp Artikel
    ISSN 2468-0141
    DOI 10.1016/j.hpj.2017.01.011
    Datenquelle NAL Katalog (AGRICOLA)

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  3. Artikel: Genome-wide association analysis of free glutamate content, a key factor conferring umami taste in the bottle gourd [Lagenaria siceraria (Mol.) Standl.]

    Wu, Xinyi / Baogen Wang / Guojing Li / Pei Xu / Xiaohua Wu / Zhongfu Lu

    Scientia horticulturae. 2017 Nov. 18, v. 225

    2017  

    Abstract: The bottle gourd or calabash [Lagenaria siceraria (Mol.) Standl.] (2n=2x=22), also known as opo squash or long melon, is an important cucurbit crop worldwide. Commonly used as a vegetable, bottle gourd fruits have a peculiar umami taste that is important ...

    Abstract The bottle gourd or calabash [Lagenaria siceraria (Mol.) Standl.] (2n=2x=22), also known as opo squash or long melon, is an important cucurbit crop worldwide. Commonly used as a vegetable, bottle gourd fruits have a peculiar umami taste that is important for their market value. To date, the umami chemical ingredients of bottle gourd fruits and their genetic determinants remain unidentified. In the current study, the relationship between umami flavor and free amino acid (FAA) contents was analyzed using a representative panel of twenty-eight accessions. Among the FAAs identified, free glutamate (Glu) was found to have the most significant association with umami taste, suggesting that free Glu is the main umami-conferring ingredient of bottle gourd. To further identify the genetic regions associated with umami taste, a genome-wide association study (GWAS) for free Glu content was conducted in a diversity panel consisting of 139 inbred lines, each sequenced with a restriction site-associated DNA sequencing (RAD-Seq) technology. Seventeen SNPs were identified as associated with free Glu content, each accounting for 7.5% to 15.1% of the phenotypic variation. The number of the favored alleles for each line varied from 0 to 13. Free Glu content exhibited a significant positive correlation with the number of the favored alleles. These results indicated that there is considerable genetic potential to develop new varieties with stronger umami taste through targeting more favored alleles of free Glu content. To our knowledge, this is the first GWAS study in bottle gourd. Our work reveals the genetic architecture of umami taste in the bottle gourd and will help facilitate molecular breeding of cultivars with improved flavor.
    Schlagwörter alleles ; breeding ; cultivars ; free amino acids ; fruits ; genetic traits ; genome-wide association study ; inbred lines ; ingredients ; Lagenaria siceraria ; market value ; melons ; new variety ; phenotypic variation ; sequence analysis ; single nucleotide polymorphism ; squashes ; taste ; umami
    Sprache Englisch
    Erscheinungsverlauf 2017-1118
    Umfang p. 795-801.
    Erscheinungsort Elsevier B.V.
    Dokumenttyp Artikel
    ZDB-ID 185557-8
    ISSN 0304-4238
    ISSN 0304-4238
    DOI 10.1016/j.scienta.2017.08.015
    Datenquelle NAL Katalog (AGRICOLA)

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  4. Artikel: Genomic regions, cellular components and gene regulatory basis underlying pod length variations in cowpea (V. unguiculata L. Walp)

    Xu, Pei / Bao‐Lam Huynh / Baogen Wang / Guojing Li / María Muñoz‐Amatriaín / Philip A. Roberts / Timothy J. Close / Wen Zhou / Xiaohua Wu / Xinyi Wu / Yaowen Hu / Zhongfu Lu

    Plant biotechnology journal. 2017 May, v. 15, no. 5

    2017  

    Abstract: Cowpea (V. unguiculata L. Walp) is a climate resilient legume crop important for food security. Cultivated cowpea (V. unguiculata L) generally comprises the bushy, short‐podded grain cowpea dominant in Africa and the climbing, long‐podded vegetable ...

    Abstract Cowpea (V. unguiculata L. Walp) is a climate resilient legume crop important for food security. Cultivated cowpea (V. unguiculata L) generally comprises the bushy, short‐podded grain cowpea dominant in Africa and the climbing, long‐podded vegetable cowpea popular in Asia. How selection has contributed to the diversification of the two types of cowpea remains largely unknown. In the current study, a novel genotyping assay for over 50 000 SNPs was employed to delineate genomic regions governing pod length. Major, minor and epistatic QTLs were identified through QTL mapping. Seventy‐two SNPs associated with pod length were detected by genome‐wide association studies (GWAS). Population stratification analysis revealed subdivision among a cowpea germplasm collection consisting of 299 accessions, which is consistent with pod length groups. Genomic scan for selective signals suggested that domestication of vegetable cowpea was accompanied by selection of multiple traits including pod length, while the further improvement process was featured by selection of pod length primarily. Pod growth kinetics assay demonstrated that more durable cell proliferation rather than cell elongation or enlargement was the main reason for longer pods. Transcriptomic analysis suggested the involvement of sugar, gibberellin and nutritional signalling in regulation of pod length. This study establishes the basis for map‐based cloning of pod length genes in cowpea and for marker‐assisted selection of this trait in breeding programmes.
    Schlagwörter breeding programs ; cell growth ; cell proliferation ; climate ; cowpeas ; domestication ; epistasis ; genes ; genome-wide association study ; genomics ; genotyping ; germplasm conservation ; gibberellins ; growth models ; marker-assisted selection ; molecular cloning ; pods ; quantitative trait loci ; single nucleotide polymorphism ; sugars ; transcriptomics ; vegetables ; Vigna unguiculata
    Sprache Englisch
    Erscheinungsverlauf 2017-05
    Umfang p. 547-557.
    Erscheinungsort John Wiley & Sons, Ltd
    Dokumenttyp Artikel
    Anmerkung JOURNAL ARTICLE
    ZDB-ID 2136367-5
    ISSN 1467-7652 ; 1467-7644
    ISSN (online) 1467-7652
    ISSN 1467-7644
    DOI 10.1111/pbi.12639
    Datenquelle NAL Katalog (AGRICOLA)

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  5. Artikel ; Online: A SNP and SSR based genetic map of asparagus bean (Vigna. unguiculata ssp. sesquipedialis) and comparison with the broader species.

    Pei Xu / Xiaohua Wu / Baogen Wang / Yonghua Liu / Jeffery D Ehlers / Timothy J Close / Philip A Roberts / Ndeye-Ndack Diop / Dehui Qin / Tingting Hu / Zhongfu Lu / Guojing Li

    PLoS ONE, Vol 6, Iss 1, p e

    2011  Band 15952

    Abstract: Asparagus bean (Vigna. unguiculata ssp. sesquipedialis) is a distinctive subspecies of cowpea [Vigna. unguiculata (L.) Walp.] that apparently originated in East Asia and is characterized by extremely long and thin pods and an aggressive climbing growth ... ...

    Abstract Asparagus bean (Vigna. unguiculata ssp. sesquipedialis) is a distinctive subspecies of cowpea [Vigna. unguiculata (L.) Walp.] that apparently originated in East Asia and is characterized by extremely long and thin pods and an aggressive climbing growth habit. The crop is widely cultivated throughout Asia for the production of immature pods known as 'long beans' or 'asparagus beans'. While the genome of cowpea ssp. unguiculata has been characterized recently by high-density genetic mapping and partial sequencing, little is known about the genome of asparagus bean. We report here the first genetic map of asparagus bean based on SNP and SSR markers. The current map consists of 375 loci mapped onto 11 linkage groups (LGs), with 191 loci detected by SNP markers and 184 loci by SSR markers. The overall map length is 745 cM, with an average marker distance of 1.98 cM. There are four high marker-density blocks distributed on three LGs and three regions of segregation distortion (SDRs) identified on two other LGs, two of which co-locate in chromosomal regions syntenic to SDRs in soybean. Synteny between asparagus bean and the model legume Lotus. japonica was also established. This work provides the basis for mapping and functional analysis of genes/QTLs of particular interest in asparagus bean, as well as for comparative genomics study of cowpea at the subspecies level.
    Schlagwörter Medicine ; R ; Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2011-01-01T00:00:00Z
    Verlag Public Library of Science (PLoS)
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  6. Artikel: Identification of an AFLP fragment linked to rust resistance in asparagus bean and its conversion to a SCAR marker.

    Guojing Li, Yonghua Liu, Jeffrey D. Ehlers, Zhujun Zhu, Xiaohua Wu, Baogeng Wang, / Zhongfu Lu

    Abstract: Rust disease, incited by the fungus Uromyces vignae [U. appendiculatus], adversely affects production and quality of asparagus bean and other types of cowpea in many parts of the world. Genetic resistance to the rust pathogen has been identified in a few ...

    Abstract Rust disease, incited by the fungus Uromyces vignae [U. appendiculatus], adversely affects production and quality of asparagus bean and other types of cowpea in many parts of the world. Genetic resistance to the rust pathogen has been identified in a few accessions, but it is difficult to efficiently transfer the resistance to a broad range of asparagus bean cultivars using traditional breeding approaches. We determined that rust resistance was controlled by a single dominant gene designated Rr1 in the cross of a highly resistant cultivar ZN016 and highly susceptible cultivar Zhijiang 282. Bulked segregant analysis was applied to an F2 population derived from these parents, and an AFLP marker (E-AAG/M-CTG), 150 bp in size, was detected in the resistant bulk. The AFLP fragment was then converted to a SCAR marker, named ABRSAAG/CTG98, and the genetic distance between the marker and the Rr1 gene was estimated to be 5.4 cM. This SCAR marker could be used effectively for MAS of Rr1 in breeding programs to develop rust-resistant asparagus bean cultivars and potentially more widely to breed rust-resistant cultivars of other types of cowpea.
    Dokumenttyp Artikel
    Datenquelle AGRIS - International Information System for the Agricultural Sciences and Technology

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  7. Artikel: Development and polymorphism of Vigna unguiculata ssp. unguiculata microsatellite markers used for phylogenetic analysis in asparagus bean (Vigna unguiculata ssp. sesquipedialis (L.) Verdc.).

    Pei Xu, Xiaohua Wu, Baogen Wang, Yonghua Liu, Dehui Qin, J. D. Ehlers, T. J. Close, Tingting Hu, Zhongfu Lu / Guojing Li

    Abstract: Asparagus bean (V. unguiculata ssp. sesquipedialis), a specific form of cowpea (V. unguiculata L. Walp.), is cultivated as a vegetable crop throughout eastern and southern Asia for its tender long pods. Little is known about the genetic relationship ... ...

    Abstract Asparagus bean (V. unguiculata ssp. sesquipedialis), a specific form of cowpea (V. unguiculata L. Walp.), is cultivated as a vegetable crop throughout eastern and southern Asia for its tender long pods. Little is known about the genetic relationship between asparagus bean and the broader species, particularly the dominant ssp. unguiculata. We report here the development and transferability of simple sequence repeat (SSR) markers, over 40% of which are EST-derived, from ssp. unguiculata to asparagus bean and the use of a subset of the polymorphic markers to assess the genetic diversity of asparagus bean cultivars from diverse geographic origins across China. A total of 410 EST derived SSR (eSSR) markers and 600 SSR markers derived from cowpea genespace sequences (GSS) were developed, with a cross-subspecies transferability of 100% and 98.5%, respectively. In a recombinant inbred line population of asparagus bean, a 1:1 segregation was observed for most loci. Principal coordinate analysis (PCA) and phylogenetic clustering based on 62 alleles detected by 14 polymorphic SSR markers distinguished ssp. unguiculata and sesquipedialis into separate groups. Improved asparagus bean cultivars in China generally have a narrow genetic basis compared with landraces varieties. This suggests that asparagus bean breeding programs need to consider utilizing landrace germplasm to enhance genetic variability and ensure long-term gains from selection and reduce genetic vulnerability to pathogen/pest epidemics. Because of their transferability across subspecies, the SSR markers described in this study could be effectively employed in cross-subspecies trait introgression breeding from ssp. unguiculata to sesquipedialis.
    Dokumenttyp Artikel
    Datenquelle AGRIS - International Information System for the Agricultural Sciences and Technology

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