Abi 3130xl automatic dna sequencer

Manufactured by Thermo Fisher Scientific

Sourced in United States

The ABI 3130xL is an automated DNA sequencer designed for high-throughput DNA analysis. It utilizes capillary electrophoresis technology to separate and detect fluorescently-labeled DNA fragments. The core function of the ABI 3130xL is to perform automated DNA sequencing.

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Lab products found in correlation

Genemapper software 5, by Thermo Fisher Scientific (1 mentions) Genescan 500 liz, by Thermo Fisher Scientific (1 mentions) Abi prism bigdye terminator cycle sequencing ready reaction kit, by Thermo Fisher Scientific (1 mentions) Pcr master mix, by Promega (1 mentions) Mutation surveyor software version 3, by SoftGenetics (1 mentions) Bigdye terminator sequencing chemistry, by Thermo Fisher Scientific (1 mentions) Salsa mlpa p034 p035 dmd kit, by MRC-Holland (1 mentions) Coffalyser net package, by MRC-Holland (1 mentions)

Spelling variants of this product

ABI 3130XL (189 citations) ABI 3130XL sequencer (85 citations) ABI 3130xl DNA Sequencer (42 citations) 3130xl sequencer (29 citations) 3130xl DNA sequencer (9 citations) ABI 3130xl automatic sequencer (6 citations) Automatic DNA sequencer (6 citations)

5 protocols using abi 3130xl automatic dna sequencer

Microsatellite DNA Isolation and Genotyping

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Genomic DNA was isolated from fresh leaves using the protocol described in [38 ]. Eight dinucleotide
microsatellite loci (Ga02, Ga03, Ga04, Ga05, Ga06, Ga07, Ga08, and Ga09) were
amplified according to Cornacini et al. (2021) [39 ]. Some individuals used in Cornacini et
al. were included in this analysis to complement the sampled populations (30
trees from MS and 30 from SP). Amplified PCR products were run on an ABI3130XL
automatic DNA sequencer (Applied Biosystems) with the GeneScan 500 LIZ size
standard and analyzed in the GeneMapper Software 5.0 (Applied Biosystems).

Manoel R.O., Rossini B.C., Cornacini M.R., Moraes M.L., Cambuim J., Alcântara M.A., Silva A.M., Sebbenn A.M, & Marino C.L. (2021). Landscape barriers to pollen and seed flow in the dioecious tropical tree Astronium fraxinifolium in Brazilian savannah. PLoS ONE, 16(8), e0255275.

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Molecular Characterization of Tambaqui Genes

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Degenerate primers were designed based on the conserved regions of
28S (Vásquez, 2009 ),
ef-1α, ras and hif-1α genes
described in the NCBI database for other fish species. We used these primers to
obtain partial fragments of tambaqui ras and hif-1α
cDNAs. PCR amplification was performed using PCR Master Mix (Promega). All PCR
products were sequenced with ABI PRISM^® BigDye^TM Terminator
Cycle Sequencing Ready Reaction kit (Applied Biosystems) and run on an ABI 3130XL
automatic DNA sequencer (Applied Biosystems). The sequences were analyzed using the
BLAST program from NCBI and then used to design the specific primers for
Colossoma macropomum q-PCR: ras,
hif-1α (target primers), 28S and
ef-1α (reference primers) shown in Table 1.

da Silva G.S., Fé L.M., da Silva M.D, & Val V.M. (2017). Ras oncogene and Hypoxia-inducible factor-1 alpha (hif-1α) expression in the Amazon fish Colossoma macropomum (Cuvier, 1818) exposed to benzo[a]pyrene.. Genetics and Molecular Biology, 40(2), 491-501.

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DNA Sequencing with Automated Variant Calling

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The PCR products were double-strand sequenced using BigDye Terminator sequencing chemistry (Life Technologies) and analyzed on an ABI 3130xL automatic DNA sequencer (Life Technologies, Carlsbad, CA, USA). Automatic variation calling was obtained by analyzing sequencing data (ABI file) using Mutation Surveyor software version 3.24 (SoftGenetics, State College, PA, USA), followed by careful inspection of the electropherograms to minimize variant loss.

Giugliano T., Santoro C., Torella A., Del Vecchio Blanco F., Grandone A., Onore M.E., Melone M.A., Straccia G., Melis D., Piccolo V., Limongelli G., Buono S., Perrotta S., Nigro V, & Piluso G. (2019). Clinical and Genetic Findings in Children with Neurofibromatosis Type 1, Legius Syndrome, and Other Related Neurocutaneous Disorders. Genes, 10(8), 580.

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Genetic Analysis of MMS-NF1 Patients

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The identified rs35857561 polymorphism in MRVI1 (RefSeq: NM_001098579.2) was genotyped in all the subjects investigated by bidirectional Sanger sequencing. Four sporadic MMS-NF1 patients were also investigated for mutations in MRVI1, GUCY1A3 (RefSeq: NM_000856.5), PRKG1 (RefSeq: NM_001098512.2) and ITPR1 (RefSeq: NM_001099952.2) by bidirectional Sanger sequencing of all coding exons (for primer pairs see S4 Table) using BigDye Terminator sequencing chemistry (Life Technologies), and analyzed on an ABI 3130xL automatic DNA sequencer (Life Technologies).

Santoro C., Giugliano T., Kraemer M., Torella A., Schwitalla J.C., Cirillo M., Melis D., Berlit P., Nigro V., Perrotta S, & Piluso G. (2018). Whole exome sequencing identifies MRVI1 as a susceptibility gene for moyamoya syndrome in neurofibromatosis type 1. PLoS ONE, 13(7), e0200446.

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Duchenne Muscular Dystrophy Genetic Evaluation

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Multiplex ligation-dependent probe amplification (MLPA) assay was performed with the SALSA MLPA P034/P035 DMD kit (MRC Holland, Amsterdam, The Netherlands), according to the manufacturer’s recommendations. The SALSA MLPA P095 Aneuploidy kit (MRC Holland, Amsterdam, The Netherlands) was used in patient II-3 to exclude the presence of an extra X-chromosome.
Following denaturation of Genomic DNA, MLPA mix and the probes are briefly added to the samples for overnight hybridization. Ligation reaction and multiplex PCR reaction were performed with a Ligase-65 master mix and polymerase master mix, respectively. The PCR products were then separated on an ABI 3130xL automatic DNA sequencer (Life Technologies, Carlsbad, CA, USA). Coffalyser.Net package (MRC-Holland, Amsterdam, The Netherlands) was performed for MLPA data analysis.

Onore M.E., Torella A., Musacchia F., D’Ambrosio P., Zanobio M., Del Vecchio Blanco F., Piluso G, & Nigro V. (2021). Linked-Read Whole Genome Sequencing Solves a Double DMD Gene Rearrangement. Genes, 12(2), 133.

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