Cloning and characterization of a highly conserved satellite DNA sequence specific for the phytoparasitic nematode Bursaphelenchus xylophilus

Tarès, Sophie; Lemontey, J.-M.; Guiran, G. de; Abad, Pierre

doi:10.1016/0378-1119(93)90278-b

Cited by 31 publications

(26 citation statements)

References 28 publications

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“…By evaluating a higher number of monomer units, the average sequence variability showed a more then twofold increase (%10%), when compared to the 3.9% average variability exhibited among the thirteen monomers originally cloned for this species (Tarès et al, 1993). Intramonomer analyses of MspI satDNA disclose several domains showing high variability, while other domains presented a strong conservation among the full set of monomers.…”

Section: Discussionmentioning

confidence: 85%

“…Tubes were put at -80°C for 45 min, and immediately transferred to 60°C for 60 min and then 95°C for 15 min in the thermal cycler. The satDNA sequences were then amplified with specific primers J10-1 5 0 -GGTGTCTAGTATAATATCAGAG-3 0 and J10-2Rc 5 0 -GTGAATTAGTGACGACGGAGTG-3 0 , designed according to the sequence derived from the MspI satDNA family previously characterized for B. xylophilus (Tarès et al, 1993). PCR was carried in 25 ll reaction mixtures in the same tubes in which were added 2.5 mM dNTP, 100 ng of each of the primers and 0.5 Unit of Taq DNA polymerase (Q-Biogene), using a TRIO-Thermoblock thermal cycler (Biometra).…”

Section: Isolation Of Mspi Satellite Dna Monomersmentioning

confidence: 99%

“…1B), and monomeric sequences extracted from the B. xylophilus genome sequence database (http://www.genedb.org/Homepage/Bxylophilus), which DNA was extracted from a mixed-stage nematode population originally isolated in Ibakari prefecture (Japan; Kikuchi et al, 2011). In the last case, a random collection of 101 repeats was obtained by performing a BLAST search of satDNA repeats on the whole genome database of B. xylophilus (Kikuchi et al, 2011), using as query the consensus sequence previously reported for this species (Tarès et al, 1993).…”

Section: Additional Monomeric Sequences Included In the Analysesmentioning

confidence: 99%

“…The species-specific MspI satDNA of B. xylophilus makes up to 30% of the nematode genome, consisting of monomer units %160 bp-long and slightly A-T rich (Tarès et al, 1993). Although this satDNA family has been recurrently used for species diagnosis (François et al, 2007;Cardoso et al, 2012), the available information regarding the structure and variation of this satDNA family is still scantily studied (Tarès et al, 1993;Castagnone-Sereno et al, 2008).…”

Section: Introductionmentioning

confidence: 99%

“…Although this satDNA family has been recurrently used for species diagnosis (François et al, 2007;Cardoso et al, 2012), the available information regarding the structure and variation of this satDNA family is still scantily studied (Tarès et al, 1993;Castagnone-Sereno et al, 2008). Despite the recent release of the genome sequence of B. xylophilus (Kikuchi et al, 2011), no output was provided for such highly repetitive regions.…”

Section: Introductionmentioning

confidence: 99%

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Sequence variability of the MspI satellite DNA family of the pinewood nematode Bursaphelenchus xylophilus at different geographic scales

Vieira

Castagnone

Mallez

et al. 2014

Molecular Phylogenetics and Evolution

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a b s t r a c tTandemly repeated sequences known as satellite DNA (satDNA) generally exhibit complex evolutionary patterns of concerted evolution in which mutations are homogenized and fixed in a stochastic process of molecular drive. Here, the nucleotidic variability of the MspI satDNA family of the pinewood nematode Bursaphelenchus xylophilus is analyzed in order to understand the evolutionary dynamics of satDNA at the intraspecific level. A total of 425 MspI monomer units, either PCR-amplified from isolates of local (Peninsula of Setúbal, Portugal) or worldwide origin, or retrieved from the B. xylophilus genome sequence, were characterized and compared. Whatever their origin, sliding window analysis of sequence variability patterns among monomers revealed low, moderate and highly variant domains, indicating that variable levels of evolutionary constraint may act upon the entire monomers. The phylogenetic inference based on the different sets of MspI satDNA family for this species shows a broad polymorphism of the individual monomers, which were distributed into four main clusters. However, such clustering appeared independent from the geographic origin of the nematodes, and could not discriminate isolates or groups of geographically close isolates. Rather, the formation of different phylogenetic groups within this satDNA family suggests an a priori embodying of a set of diverging repeats from a common ancestor satDNA library, which have been differently amplified along the evolutionary pathway of this species. The present work improves knowledge on the evolutionary dynamics of satDNA at the intraspecific level, and provides new information on satDNA sequence variability among natural populations sampled at a local geographic scale.

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Section: Discussionmentioning

confidence: 85%

Section: Isolation Of Mspi Satellite Dna Monomersmentioning

confidence: 99%

Section: Additional Monomeric Sequences Included In the Analysesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Sequence variability of the MspI satellite DNA family of the pinewood nematode Bursaphelenchus xylophilus at different geographic scales

Vieira

Castagnone

Mallez

et al. 2014

Molecular Phylogenetics and Evolution

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The essential role of arginine biosynthetic genes in lunate conidia formation, conidiation, mycelial growth, and virulence of nematophagous fungus, Esteya vermicolaCBS115803

Chen,

Hu,

Zheng

et al. 2023

Pest Management Science

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BACKGROUNDThe pinewood nematode (Bursaphelenchus xylophilus) causes severe damage to pine trees. The nematophagous fungus, Esteya vermicola, exhibits considerable promise in the biological control of Bursaphelenchus xylophilus due to its infectivity. Notably, the lunate conidia produced by E. vermicola can infect Bursaphelenchus xylophilus. In the study, we aim to investigate the genes involved in the formation of the lunate conidia of E. vermicola CBS115803.RESULTSEsteya vermicola CBS115803 yielded 95% lunate conidia on the complete medium (CM) and 86% bacilloid conidia on the minimal medium (MM). Transcriptomic analysis of conidia from both media revealed a significant enrichment of differentially expressed genes in the pathway related to ‘cellular amino acid biosynthesis and metabolism’. Functional assessment showed that the knockout of two arginine biosynthesis genes (EV232 and EV289) resulted in defects in conidia germination, mycelial growth, lunate conidia formation, and virulence of E. vermicola CBS115803 in Bursaphelenchus xylophilus. Remarkably, the addition of arginine to the MM improved mycelial growth, conidiation and lunate conidia formation in the mutants and notably increased conidia yield and the lunate conidia ratio in the wild‐type E. vermicola CBS115803.CONCLUSIONThis investigation confirms the essential role of two arginine biosynthesis genes in lunate conidia formation in E. vermicola CBS115803. The findings also suggest that the supplementation of arginine to the culture medium can enhance the lunate conidia yield. These insights contribute significantly to the application of E. vermicola CBS115803 in managing Bursaphelenchus xylophilus infections. © 2023 Society of Chemical Industry.

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Unusual and Strongly Structured Sequence Variation in a Complex Satellite DNA Family from the Nematode Meloidogyne chitwoodi

Castagnone‐Sereno¹,

Leroy²,

Semblat³

et al. 1998

J Mol Evol

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An AluI satellite DNA family has been isolated in the genome of the root-knot nematode Meloidogyne chitwoodi. This repeated sequence was shown to be present at approximately 11,400 copies per haploid genome, and represents about 3.5% of the total genomic DNA. Nineteen monomers were cloned and sequenced. Their length ranged from 142 to 180 bp, and their A + T content was high (from 65.7 to 79.1%), with frequent runs of As and Ts. An unexpected heterogeneity in primary structure was observed between monomers, and multiple alignment analysis showed that the 19 repeats could be unambiguously clustered in six subfamilies. A consensus sequence has been deduced for each subfamily, within which the number of positions conserved is very high, ranging from 86.7% to 98.6%. Even though blocks of conserved regions could be observed, multiple alignment of the six consensus sequences did not enable the establishment of a general unambiguous consensus sequence. Screening of the six consensus sequences for evidence of internal repeated subunits revealed a 6-bp motif (AAATTT), present in both direct and inverted orientation. This motif was found up to nine times in the consensus sequences, also with the occurrence of degenerated subrepeats. Along with the meiotic parthenogenetic mode of reproduction of this nematode, such structural features may argue for the evolution of this satellite DNA family either (1) from a common ancestral sequence by amplification followed by mechanisms of sequence divergence, or (2) through independent mutations of the ancestral sequence in isolated amphimictic nematode populations and subsequent hybridization events. Overall, our results suggest the ancient origin of this satellite DNA family, and may reflect for M. chitwoodi a phylogenetic position close to the ancestral amphimictic forms of root-knot nematodes.

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Cloning and characterization of a highly conserved satellite DNA sequence specific for the phytoparasitic nematode Bursaphelenchus xylophilus

Cited by 31 publications

References 28 publications

Sequence variability of the MspI satellite DNA family of the pinewood nematode Bursaphelenchus xylophilus at different geographic scales

Sequence variability of the MspI satellite DNA family of the pinewood nematode Bursaphelenchus xylophilus at different geographic scales

The essential role of arginine biosynthetic genes in lunate conidia formation, conidiation, mycelial growth, and virulence of nematophagous fungus, Esteya vermicolaCBS115803

Unusual and Strongly Structured Sequence Variation in a Complex Satellite DNA Family from the Nematode Meloidogyne chitwoodi

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