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Image Search Results
Journal: Nature Communications
Article Title: Adaptive dynamics of extrachromosomal circular DNA in rice under nutrient stress
doi: 10.1038/s41467-025-59572-x
Figure Lengend Snippet: a Count distribution of identified exclusive ecGenes between 1-day control samples ( Ctrl_D1 ) and 3-day control samples ( Ctrl_D3 ). b Count distribution of identified exclusive ecGenes between 1-day control samples ( Ctrl_D1 ) and 7-day control samples ( Ctrl_D7 ). c Count distribution of identified exclusive ecGenes between 1-day control samples ( Ctrl_D1 ) and 14-day control samples ( Ctrl_D14 ). d Dot-plot illustrating the significantly enriched GO biological process categories summarized by REVIGO for the exclusive ecGenes during optimal growth from Ctrl_D1 vs . Ctrl_D3 , Ctrl_D1 vs . Ctrl_D7 , and Ctrl_D1 vs . Ctrl_D14 . e Karyoplots of the Chr10:15806500-15811000 locus showing (from top to bottom) regions of eccDNAs and ONT sequencing coverage in two replicates of 14-day control samples ( Ctrl_D14_1 and Ctrl_D14_2 ), regions of SANGER sequencing (SANGERseq) fragments from inverse PCR validation in 14-day control samples, and the transcript structure of Os10g0439924. f Gel electrophoresis of inverse PCR products from the ecGene derived from the Os10g0439924 locus in 14-day control samples ( Ctrl_D14 ). The experiment was conducted twice. M: DNA Marker; bp: base pair; gDNA: template genomic DNA from Ctrl_D14 ; RCA: template rRCA products from Ctrl_D14 ; forward primer: 5’-CCCTACATATTGCCCATGCATTCAC-3’; reverse primer: 5’-GTATTGGAAGAGTGCCGAGGAG-3’. Circles in red: symbol used for pointing out amplified products of ecGene .
Article Snippet: After the column purification with
Techniques: Control, Sequencing, Inverse PCR, Biomarker Discovery, Nucleic Acid Electrophoresis, Derivative Assay, Marker, Amplification
Journal: Nature Communications
Article Title: Adaptive dynamics of extrachromosomal circular DNA in rice under nutrient stress
doi: 10.1038/s41467-025-59572-x
Figure Lengend Snippet: a Count distribution of identified exclusive ecGenes between 3-day control samples ( Ctrl_D3 ) and 3-day LN treatment ( LN_D3 ). b Count distribution of identified exclusive ecGenes between 7-day control samples ( Ctrl_D7 ) and 7-day LN treatment ( LN_D7 ). c Dot-plot illustrating the significantly enriched GO biological process categories summarized by REVIGO for the exclusive ecGenes from Ctrl_D3 vs. LN_D3 . d Dot-plot illustrating the enriched GO biological process categories summarized by REVIGO for the exclusive ecGenes from Ctrl_D7 vs. LN_D7 . e Karyoplots of the Chr03:27413000-27419000 locus showing (from top to bottom) region of eccDNAs, ONT sequencing coverage in one replicate of 7-day LN treatment ( LN_D7_2 ), regions of SANGER sequencing (SANGERseq) fragments from inverse PCR validation under 7-day LN treatments, and the transcript structure of Os03g0687000. f Gel electrophoresis of inverse PCR products from the ecGene derived from the Os03g0687000 locus under 7-day LN treatment ( LN_D7 ). The experiment was conducted twice. M: DNA Marker; bp: base pair; gDNA: template genomic DNA from LN_D7 ; RCA: template rRCA products from LN_D7 ; forward primer: 5’-CAGAAGTGGCTCTCGCTATCAAAC-3’; reverse primer: 5’-GATAATCAGCCATAAGAGTGTTC-3’. Circle in red: amplified products of ecGene .
Article Snippet: After the column purification with
Techniques: Control, Sequencing, Inverse PCR, Biomarker Discovery, Nucleic Acid Electrophoresis, Derivative Assay, Marker, Amplification
Journal: Nature Communications
Article Title: Adaptive dynamics of extrachromosomal circular DNA in rice under nutrient stress
doi: 10.1038/s41467-025-59572-x
Figure Lengend Snippet: a Count distribution of sequencing reads on the number of fragments (Nfragment) for eccDNAs by treatment. b Karyoplot showing the chromosomal distribution of all the fragments identified in the MF-eccDNA reads. c Count distribution on the reads of MF-eccDNAs with Os04g0343050 (cytochrome c oxidase subunit 2) or Os05g0372300 (putative cytochrome P450) as core gene by treatments. d Count distribution on the number of fragments in MF-eccDNAs with Os04g0343050 as the core gene identified in all treatments. e Count distribution on the number of fragments in MF-eccDNAs with Os05g0372300 as the core gene identified in all treatments. f Circular representation and detailed fragment location of the 5-fragment (5 f) eccDNAs with Os04g0343050 as the core gene. g Dot-plot showing the correlation between individual sequence from ONT sequencing read and reference sequence of Os04g0343050-5f eccDNAs under 14-day LP treatments. Black dots: Seq2PlusStrand; Red dots: Seq2MinusStrand; bp: base pair. h Gel electrophoresis of inverse PCR products from the Os04g0343050-5f eccDNAs under 7-day LN treatments ( LN_D7 ). The experiment was conducted twice. M: DNA Marker; bp: base pair; gDNA: template genomic DNA from LN_D7 ; pure eccDNAs: template pure eccDNAs from LN_D7 ; forward primer, 5’-GAAGACCACACTCAGGATGT-3’; reverse primer, 5’-CACTTAAATCACCCTCGCTAAGAG-3’. Circle in red: amplified products of eccDNA). i Gel electrophoresis of inverse PCR products from the Os04g0343050-5f eccDNAs under 14-day LP treatments ( LP_D14 ). The experiment was conducted twice. M: DNA Marker; bp: base pair; gDNA: template genomic DNA from LP_D14 ; pure eccDNAs: template pure eccDNAs from LP_D14 ; forward primer, 5’-GAAGACCACACTCAGGATGT-3’; reverse primer, 5’-CACTTAAATCACCCTCGCTAAGAG-3’. Circle in red: amplified products of eccDNA. j Dot-plot showing the correlation between the individual sequence from Whole Plasmid Sequencing (based on ONT) of inverse PCR validation under 7-day LN treatments ( LN_D7 ) and the reference sequence of Os04g0343050-5f eccDNAs. Black dots: Seq2PlusStrand; Red dots: Seq2MinusStrand. k Dot plot showing the correlation between individual sequence from Whole Plasmid Sequencing of inverse PCR validation under 14-day LP treatments ( LP_D14 ) and reference sequence of Os04g0343050- 5 f eccDNAs. Black dots: Seq2PlusStrand; Red dots: Seq2MinusStrand.
Article Snippet: After the column purification with
Techniques: Sequencing, Nucleic Acid Electrophoresis, Inverse PCR, Marker, Amplification, Plasmid Preparation, Biomarker Discovery