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x campestris pv coriandri (ATCC)

Name: x campestris pv coriandri
Brand: ATCC
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ATCC x campestris pv coriandri
A list of the bacterial strains that were included in this study.

X Campestris Pv Coriandri, supplied by ATCC, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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1) Product Images from "Novel PCR-Based Detection Methods for the Lettuce Bacterial Leaf Spot Pathogen, Xanthomonas hortorum pv. vitians Morinière et al., 2020"

Article Title: Novel PCR-Based Detection Methods for the Lettuce Bacterial Leaf Spot Pathogen, Xanthomonas hortorum pv. vitians Morinière et al., 2020

Journal: Plants

doi: 10.3390/plants14060964

Figure Legend Snippet: A list of the bacterial strains that were included in this study.

Techniques Used: Isolation

Evaluation of our Xhv -specific method using twenty-four Xanthomonas type strains. Genomic DNA from the following strains was used as templates for touchdown PCR using our GC3906-152 primer set designed for Xhv -specific detection: Xhv (CFBP 8686 PT ), X. axonopodis (CFBP 4924 T ), X. campestris (CFBP 5251 T ), X. translucens (CFBP 2054 T ), X. theicola (CFBP 4691 T ), X. arboricola (CFBP 2528 T ), X. cucurbitae (CFBP 2542 T ), X. alfalfae (CFBP 7686 T ), X. sacchari (CFBP 4641 T ), X. melonis (CFBP 4644 T ), X. hyacinthi (CFBP 1156 T ), X. phaseoli (CFBP 8462 T ), X. bromi (CFBP 1976 T ), X. euvesicatoria (CFBP 6864 T ), X. vasicola (CFBP 2543 T ), X. cassavae (CFBP 4642 T ), X. populi (CFBP 1817 T ), X. vesicatoria (CFBP 2537 T ), X. pisi (CFBP 4643 T ), X. dyei (CFBP 7245 T ), X. citri (CFBP 3369 T ), X. albilineans (CFBP 2523 T ), X. perforans (CFBP 7293 T ), and X. codiae (CFBP 4690 T ). The 1 KB DNA ladder from NEB was used as a size reference for the amplicon, and 1% agarose gels were run for 20 min at 120 V.

Figure Legend Snippet: Evaluation of our Xhv -specific method using twenty-four Xanthomonas type strains. Genomic DNA from the following strains was used as templates for touchdown PCR using our GC3906-152 primer set designed for Xhv -specific detection: Xhv (CFBP 8686 PT ), X. axonopodis (CFBP 4924 T ), X. campestris (CFBP 5251 T ), X. translucens (CFBP 2054 T ), X. theicola (CFBP 4691 T ), X. arboricola (CFBP 2528 T ), X. cucurbitae (CFBP 2542 T ), X. alfalfae (CFBP 7686 T ), X. sacchari (CFBP 4641 T ), X. melonis (CFBP 4644 T ), X. hyacinthi (CFBP 1156 T ), X. phaseoli (CFBP 8462 T ), X. bromi (CFBP 1976 T ), X. euvesicatoria (CFBP 6864 T ), X. vasicola (CFBP 2543 T ), X. cassavae (CFBP 4642 T ), X. populi (CFBP 1817 T ), X. vesicatoria (CFBP 2537 T ), X. pisi (CFBP 4643 T ), X. dyei (CFBP 7245 T ), X. citri (CFBP 3369 T ), X. albilineans (CFBP 2523 T ), X. perforans (CFBP 7293 T ), and X. codiae (CFBP 4690 T ). The 1 KB DNA ladder from NEB was used as a size reference for the amplicon, and 1% agarose gels were run for 20 min at 120 V.

Techniques Used: Touchdown PCR, Amplification

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Journal: Plants

Article Title: Novel PCR-Based Detection Methods for the Lettuce Bacterial Leaf Spot Pathogen, Xanthomonas hortorum pv. vitians Morinière et al., 2020

doi: 10.3390/plants14060964

Figure Lengend Snippet: A list of the bacterial strains that were included in this study.

Article Snippet: X. campestris pv. coriandri , CFBP 8452 PT , LMG 687 PT , ATCC 17996 PT , ICMP 5725 PT , NCPPB 1758 PT , PDDCC 5725 PT , Coriandrum sativum (coriander) , N/A , No , No , No , No , India , [ , , ] .

Techniques: Isolation

Journal: Plants

Article Title: Novel PCR-Based Detection Methods for the Lettuce Bacterial Leaf Spot Pathogen, Xanthomonas hortorum pv. vitians Morinière et al., 2020

doi: 10.3390/plants14060964

Figure Lengend Snippet: Evaluation of our Xhv -specific method using twenty-four Xanthomonas type strains. Genomic DNA from the following strains was used as templates for touchdown PCR using our GC3906-152 primer set designed for Xhv -specific detection: Xhv (CFBP 8686 PT ), X. axonopodis (CFBP 4924 T ), X. campestris (CFBP 5251 T ), X. translucens (CFBP 2054 T ), X. theicola (CFBP 4691 T ), X. arboricola (CFBP 2528 T ), X. cucurbitae (CFBP 2542 T ), X. alfalfae (CFBP 7686 T ), X. sacchari (CFBP 4641 T ), X. melonis (CFBP 4644 T ), X. hyacinthi (CFBP 1156 T ), X. phaseoli (CFBP 8462 T ), X. bromi (CFBP 1976 T ), X. euvesicatoria (CFBP 6864 T ), X. vasicola (CFBP 2543 T ), X. cassavae (CFBP 4642 T ), X. populi (CFBP 1817 T ), X. vesicatoria (CFBP 2537 T ), X. pisi (CFBP 4643 T ), X. dyei (CFBP 7245 T ), X. citri (CFBP 3369 T ), X. albilineans (CFBP 2523 T ), X. perforans (CFBP 7293 T ), and X. codiae (CFBP 4690 T ). The 1 KB DNA ladder from NEB was used as a size reference for the amplicon, and 1% agarose gels were run for 20 min at 120 V.

Techniques: Touchdown PCR, Amplification

Depicts a ring plot that highlights the unique sequence region employed in developing a loop-mediated isothermal amplification (LAMP) assay for the specific detection of Xanthomonas axonopodis pv . vasculorum . This circular graphic illustrates multiple genome alignments that include six X. axonopodis pv. vasculorum genomes (three of which were obtained from our lab) and ten other Xanthomonas species that share the same ecological niche or infect the same host, sugarcane. The first three innermost layers of the graphic represent the genome coordinates (in megabase pairs, mbp), the GC content (depicted as a zigzag black line), and the GC skew (shown as a zigzag purple + / green - line) of the reference genome X. axonopodis pv. vasculorum strain NCPPB 796. Subsequent color-coded rings display the BLASTn pairwise comparisons of various X. axonopodis pv. vasculorum strains, including NCPPB 796 (NZ_CP053649), NCPPB 900 (NZ_JPHD00000000), CFBP5823 (MDCD00000000), LMG894, LMG901, and LMG903. These are followed by the position of the unique target region conserved across all X. axonopodis pv. vasculorum strains, which is pointed out and labeled in red. Additionally, the plot includes genomes from other Xanthomonas species, such as X. campestris pv. campestris ATCC 33913 (NC_003902), X. campestris pv. musacearum NCPPB 4379 (NZ_AKBF00000000), X. citri pv. citri MN12 (NZ_CP008998), X. euvesicatoria pv. alfalfae CFBP3836 (NZ_CP072268), X. oryzae pv. oryzae ICMP3135 (NZ_CP031697), X. oryzae pv. oryzicola GX01 (NZ_CP043403), X. phaseoli pv. dieffenbachiae LMG695 (NZ_CP014347), X. perforans GEV872 (NZ_CP116305), X. vasicola pv. vasculorum Xv1601 (NZ_CP025272), and X. sacchari DJ16 (NZ_CP121698). This image was generated using the BLAST Ring Image Generator (BRIG) v 0.95 .

Journal: bioRxiv

Article Title: Loop-mediated Isothermal Amplification (LAMP) assay for reliable detection of Xanthomonas axonopodis pv. vasculorum

doi: 10.1101/2024.02.07.579270

Figure Lengend Snippet: Depicts a ring plot that highlights the unique sequence region employed in developing a loop-mediated isothermal amplification (LAMP) assay for the specific detection of Xanthomonas axonopodis pv . vasculorum . This circular graphic illustrates multiple genome alignments that include six X. axonopodis pv. vasculorum genomes (three of which were obtained from our lab) and ten other Xanthomonas species that share the same ecological niche or infect the same host, sugarcane. The first three innermost layers of the graphic represent the genome coordinates (in megabase pairs, mbp), the GC content (depicted as a zigzag black line), and the GC skew (shown as a zigzag purple + / green - line) of the reference genome X. axonopodis pv. vasculorum strain NCPPB 796. Subsequent color-coded rings display the BLASTn pairwise comparisons of various X. axonopodis pv. vasculorum strains, including NCPPB 796 (NZ_CP053649), NCPPB 900 (NZ_JPHD00000000), CFBP5823 (MDCD00000000), LMG894, LMG901, and LMG903. These are followed by the position of the unique target region conserved across all X. axonopodis pv. vasculorum strains, which is pointed out and labeled in red. Additionally, the plot includes genomes from other Xanthomonas species, such as X. campestris pv. campestris ATCC 33913 (NC_003902), X. campestris pv. musacearum NCPPB 4379 (NZ_AKBF00000000), X. citri pv. citri MN12 (NZ_CP008998), X. euvesicatoria pv. alfalfae CFBP3836 (NZ_CP072268), X. oryzae pv. oryzae ICMP3135 (NZ_CP031697), X. oryzae pv. oryzicola GX01 (NZ_CP043403), X. phaseoli pv. dieffenbachiae LMG695 (NZ_CP014347), X. perforans GEV872 (NZ_CP116305), X. vasicola pv. vasculorum Xv1601 (NZ_CP025272), and X. sacchari DJ16 (NZ_CP121698). This image was generated using the BLAST Ring Image Generator (BRIG) v 0.95 .

Article Snippet: The genomes were retrieved from the NCBI GenBank database and are available under the following accession numbers: X. axonopodis pv. vasculorum NCPPB796 (NZ_CP053649) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_013177355.1/ ; X. axonopodis pv. vasculorum CFBP5823 (MCDC00000000) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_002939725.1/ ; X. axonopodis pv. vasculorum NCPPB900 (NZ_JPHD00000000) https://www.ncbi.nlm.nih.gov/datasets/taxonomy/325777/ ; X. campestris pv. campestris ATCC 33913 (NC_003902) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000007145.1/ ; X. campestris pv. musacearum NCPPB 4379 (NZ_CP034655) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000277895.2/ ; X. citri pv. citri MN12 (NZ_CP008998) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000961215.1/ ; X. euvesicatoria pv. alfalfae CFBP 3836 (NZ_CP072268) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_017724035.1/ ; X. oryzae pv. oryzae ICMP3135 (NZ_CP031697) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_004136375.1/ ; X. oryzae pv. oryzicola GX01 (NZ_CP043403) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_008370835.2/ ; X. phaseoli pv. dieffenbachiae LMG 695 (NZ_CP014347) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_001564415.1/ ; X. perforans GEV872 (NZ_CP116305) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_028010245.1/ ; X. vasicola pv. vasculorum Xv1601 (NZ_CP025272) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_003949975.1/ ; X. sacchari DJ16 (NZ_CP121698) https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_029761895.1/ .

Techniques: Sequencing, Amplification, Lamp Assay, Labeling, Generated

Specificity validation of the loop-mediated isothermal amplification (LAMP) assay designed for specific amplification of Xanthomonas axonopodis pv. vasculorum was conducted with 87 bacterial strains, as detailed in the inclusivity and exclusivity panels in . (A) Curves surpassing the threshold of 0.2 normal fluorescence indicate a positive result. All strains from the inclusivity panel were positive, and all strains from the exclusivity panel tested negative. (B) SYBR Green I dye was added to each tube, with Xav strains in tubes 1-6 (LMG901, LMG894, LMG897, LMG903, LMG8709, LMG8715) and exclusivity strains in tubes 7-12 (A6252 - X. citri pv. aracearum , A5592 - X. sacchari , A6237 - X. sonti , A6256 - X. phaseoli pv. dieffenbachiae , A1809 - X. euvesicatoria , A4724 - X. campestris pv . campestris ). Positive results changed to green, while negative results remained orange. (C) Positive SYBR Green binding was verified by fluorescence emission detection under UV light.

Journal: bioRxiv

Article Title: Loop-mediated Isothermal Amplification (LAMP) assay for reliable detection of Xanthomonas axonopodis pv. vasculorum

doi: 10.1101/2024.02.07.579270

Figure Lengend Snippet: Specificity validation of the loop-mediated isothermal amplification (LAMP) assay designed for specific amplification of Xanthomonas axonopodis pv. vasculorum was conducted with 87 bacterial strains, as detailed in the inclusivity and exclusivity panels in . (A) Curves surpassing the threshold of 0.2 normal fluorescence indicate a positive result. All strains from the inclusivity panel were positive, and all strains from the exclusivity panel tested negative. (B) SYBR Green I dye was added to each tube, with Xav strains in tubes 1-6 (LMG901, LMG894, LMG897, LMG903, LMG8709, LMG8715) and exclusivity strains in tubes 7-12 (A6252 - X. citri pv. aracearum , A5592 - X. sacchari , A6237 - X. sonti , A6256 - X. phaseoli pv. dieffenbachiae , A1809 - X. euvesicatoria , A4724 - X. campestris pv . campestris ). Positive results changed to green, while negative results remained orange. (C) Positive SYBR Green binding was verified by fluorescence emission detection under UV light.

Techniques: Amplification, Lamp Assay, Fluorescence, SYBR Green Assay, Binding Assay

Multi-device validation of Xanthomonas axonopodis pv. vasculorum was conducted using three different instruments: (A) Rotor-Gene Q real-time PCR (Qiagen), (B) T100 thermal cycler (Bio-Rad), and (C) dry bath (VWR). Three independent operators performed the assays on the aforementioned platforms, maintaining a consistent temperature of 65 °C for 20 minutes. The positive samples comprised cell lysate directly from Xav colonies (LMG901, LMG894, LMG897, LMG903, LMG8709). The change to green color after addition of SYBR Green dye and subsequent fluorescence under UV light indicated positive amplification. Five non-target samples were included: X. campestris pv. campestris (A4724), X. sacchari (A5592), X. citri pv. aracearum (A6252), X. sontii (A6237), and a non-template control. After addition of SYBR Green dye, these samples remained their orange and showed no fluorescence under UV light, indicating a negative reaction.

Journal: bioRxiv

Article Title: Loop-mediated Isothermal Amplification (LAMP) assay for reliable detection of Xanthomonas axonopodis pv. vasculorum

doi: 10.1101/2024.02.07.579270

Figure Lengend Snippet: Multi-device validation of Xanthomonas axonopodis pv. vasculorum was conducted using three different instruments: (A) Rotor-Gene Q real-time PCR (Qiagen), (B) T100 thermal cycler (Bio-Rad), and (C) dry bath (VWR). Three independent operators performed the assays on the aforementioned platforms, maintaining a consistent temperature of 65 °C for 20 minutes. The positive samples comprised cell lysate directly from Xav colonies (LMG901, LMG894, LMG897, LMG903, LMG8709). The change to green color after addition of SYBR Green dye and subsequent fluorescence under UV light indicated positive amplification. Five non-target samples were included: X. campestris pv. campestris (A4724), X. sacchari (A5592), X. citri pv. aracearum (A6252), X. sontii (A6237), and a non-template control. After addition of SYBR Green dye, these samples remained their orange and showed no fluorescence under UV light, indicating a negative reaction.

Techniques: Real-time Polymerase Chain Reaction, SYBR Green Assay, Fluorescence, Amplification, Control

Detection of Xanthomonas axonopodis pv. vasculorum from infected sugarcane plant slices. LAMP products were visualized after addition of SYBR Green I dye—green color represents positive amplification. Tube 1 is a positive control (LMG901); tubes 2-7 are sugarcane plant slice samples infected with six different Xav strains: LMG894, LMG897, LMG901, LMG903, LMG8709, and LMG8715; tubes 8-12 are sugarcane slices inoculated with other Xanthomonas species: Xanthomonas campestris pv. campestris (A4724) , Xanthomonas hawaiiensis sp. nov. (A2111), Xanthomonas citri pv. aracearum (A6252) , Xanthomonas sacchari (A5592) , Xanthomonas sontii (A6237); tube 13 contains healthy sugarcane, and tube 14 is non-template control (NTC – sterile water).

Journal: bioRxiv

Article Title: Loop-mediated Isothermal Amplification (LAMP) assay for reliable detection of Xanthomonas axonopodis pv. vasculorum

doi: 10.1101/2024.02.07.579270

Figure Lengend Snippet: Detection of Xanthomonas axonopodis pv. vasculorum from infected sugarcane plant slices. LAMP products were visualized after addition of SYBR Green I dye—green color represents positive amplification. Tube 1 is a positive control (LMG901); tubes 2-7 are sugarcane plant slice samples infected with six different Xav strains: LMG894, LMG897, LMG901, LMG903, LMG8709, and LMG8715; tubes 8-12 are sugarcane slices inoculated with other Xanthomonas species: Xanthomonas campestris pv. campestris (A4724) , Xanthomonas hawaiiensis sp. nov. (A2111), Xanthomonas citri pv. aracearum (A6252) , Xanthomonas sacchari (A5592) , Xanthomonas sontii (A6237); tube 13 contains healthy sugarcane, and tube 14 is non-template control (NTC – sterile water).

Techniques: Infection, SYBR Green Assay, Amplification, Positive Control, Control, Sterility

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1) Product Images from "Novel PCR-Based Detection Methods for the Lettuce Bacterial Leaf Spot Pathogen, Xanthomonas hortorum pv. vitians Morinière et al., 2020"

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