sequencing service  (Macrogen)

Journal: bioRxiv

Article Title: Fusobacterium nucleatum produces previously unappreciated AHR-activating metabolites and promotes CRC cell proliferation via the AHR-TERT axis

doi: 10.1101/2025.09.25.678601

Figure Lengend Snippet:

Article Snippet: Genomic DNA was isolated from ∼10 mg of the respective human CRC and normal colon tissues (a total of 60 samples) using ZymoBIOMICS TM DNA Miniprep Kit (Zymo Research) and sent to Zymo Research for bacterial 16S rRNA gene targeted sequencing service.

Techniques: Bacteria

Journal: bioRxiv

Article Title: The gut microbiome promotes detoxification responses to an environmental toxicant

doi: 10.1101/2025.08.14.670327

Figure Lengend Snippet: Male ( A-E ) and female ( F-J ) wildtype mice were orally exposed with 3mg/kg deltamethrin or corn oil vehicle, 1x weekly for 12 weeks. Prior to exposure, and at 6 and 12wks, stool was subjected to 16S microbiome profiling. ( A, B, F, G ) Alpha diversity measurements for Chao1 ( A, F ) and Simpson indexes ( B, G ). ( C, H ) PCA plots of Bray-Curtis beta diversity measures. ( D, I ) Genera composition charts. ( E, J ) Select genera displaying time or treatment effects (see Supplemental Table S1). N=8; A, B, E,-G, J points represent mean and bars the standard error. C, H points represent individuals. A, B, F, G data assessed by mixed-effects REML and post-hoc Fisher’s tests, with lines indicating between group differences. * p ≤0.05; ** p ≤0.01

Article Snippet: Samples were then subjected to 16S sequencing and analysis as we have performed previously( ) via full service 16S sequencing / analysis through the ZymoBIOMICS pipeline (Zymo, Inc; Irvine CA).

Techniques:

Journal: Virus Research

Article Title: Enterovirus 71 structural viral protein 1 promotes the expression of PMP22 through m 6 A modification in mouse Schwann cells

doi: 10.1016/j.virusres.2025.199590

Figure Lengend Snippet: VP1 up-regulated the expressions of key elements involved in m 6 A modification in MSCs. A-I, qRT-PCR analysis of the mRNA levels of EV71-VP1, METTLE 3/14, YTHDC1, YTHDF 1/2/3, FTO and ALKBH5 in MSCs transfected with PEGFP-C3-VP1 plasmid for 24 h. N = 3. * p < 0.05 compared with the NC group. J-K, Western blot analysis and quantification of protein expressions of EV71-VP1 and key elements involved in m 6 A modification in MSCs transfected with PEGFP-C3-VP1 plasmid for 48 h, including ALKBH5, FTO, METTLE 3/14, YTHDF 1/2/3, and YTHDC1. GAPDH was used as internal control. N = 3. * p < 0.05 compared with the NC group.

Article Snippet: And the sequences of the products were identified by Sangon Biotech for confirmation of successful cloning, which were compared with the VP1 cDNA sequence reported in the GenBank database (GenBank accession number: U55763 ).

Techniques: Modification, Quantitative RT-PCR, Transfection, Plasmid Preparation, Western Blot, Control

Journal: Virus Research

Article Title: Enterovirus 71 structural viral protein 1 promotes the expression of PMP22 through m 6 A modification in mouse Schwann cells

doi: 10.1016/j.virusres.2025.199590

Figure Lengend Snippet: Methylation inhibitor 3-DZA reduced the expressions of key elements involved in m6A modification in VP1-over-expressed MSCs A-D, qRT-PCR analysis of the mRNA levels of METTLE 3/14 and YTHDF 1/2 in VP1-over-expressed MSCs treated with or without 3-DZA for 24 h. Groups of cell and NC were used as blank control and negative control, respectively. N = 3. * p < 0.05 compared with the NC group. # p < 0.05 compared with the PC-VP1 group. E-F, Western blot analysis and quantification of protein expressions of METTLE 3/14 and YTHDF 1/2 in VP1-over-expressed MSCs treated with or without 3-DZA for 24 h. Groups of cell and NC were used as blank control and negative control, respectively. GAPDH was used as internal control. N = 3. * p < 0.05 compared with the NC group. # p < 0.05 compared with the PC-VP1 group.

Article Snippet: And the sequences of the products were identified by Sangon Biotech for confirmation of successful cloning, which were compared with the VP1 cDNA sequence reported in the GenBank database (GenBank accession number: U55763 ).

Techniques: Methylation, Modification, Quantitative RT-PCR, Control, Negative Control, Western Blot

Journal: Virus Research

Article Title: Enterovirus 71 structural viral protein 1 promotes the expression of PMP22 through m 6 A modification in mouse Schwann cells

doi: 10.1016/j.virusres.2025.199590

Figure Lengend Snippet: METTL14 and YTHDF1 were down-regulated in VP1-over-expressed MSCs via siRNA transfection. A-B, Gene sequencing revealed the targeted sites of siRNAs against METTL14 and YTHDF1, respectively. C, qRT-PCR analysis of the mRNA level of METTLE14 in VP1-over-expressed MSCs transfected with siRNA against METTL14. d -E, Western blot analysis and quantification of protein expression of METTLE14 in VP1-over-expressed MSCs transfected with siRNA against METTL14. F, qRT-PCR analysis of the mRNA level of YTHDF1 in VP1-over-expressed MSCs transfected with siRNA against YTHDF1. G-H, Western blot analysis and quantification of protein expression of YTHDF1 in VP1-over-expressed MSCs transfected with siRNA against YTHDF1. Groups of cell and PC—NC were used as blank control and negative control, respectively. N = 3. * p < 0.05 compared with the PC—NC group. # p < 0.05 compared with the PC-VP1 group.

Article Snippet: And the sequences of the products were identified by Sangon Biotech for confirmation of successful cloning, which were compared with the VP1 cDNA sequence reported in the GenBank database (GenBank accession number: U55763 ).

Techniques: Transfection, Sequencing, Quantitative RT-PCR, Western Blot, Expressing, Control, Negative Control

Journal: Virus Research

Article Title: Enterovirus 71 structural viral protein 1 promotes the expression of PMP22 through m 6 A modification in mouse Schwann cells

doi: 10.1016/j.virusres.2025.199590

Figure Lengend Snippet: The suppression of METTL14 or YTHDF1 down-regulated the expression of PMP22 in VP1-over-expressed MSCs. A-B, Western blot analysis and quantification of protein expressions of PMP22 in VP1-over-expressed MSCs transfected with siRNA against METTL14 or YTHDF. Groups of cell and PC—NC were used as blank control and negative control, respectively. GAPDH was used as internal control. N = 3. * p < 0.05 compared with the PC—NC group. # p < 0.05 compared with the PC-VP1 group.

Article Snippet: And the sequences of the products were identified by Sangon Biotech for confirmation of successful cloning, which were compared with the VP1 cDNA sequence reported in the GenBank database (GenBank accession number: U55763 ).

Techniques: Expressing, Western Blot, Transfection, Control, Negative Control