Capture regions of interest in high resolution
Combining PacBio long-read sequencing with targeted sequence capture or bacterial artificial chromosomes (BACs) provides a powerful tool for a comprehensive view of specific genomic regions of interest, regardless of size.
Single Molecule, Real-Time (SMRT) Sequencing offers a flexible solution for targeting regions of interest, from several hundred base pairs to 20 kb, and delivers the most comprehensive view of the associated genes. With highly accurate long reads (HiFi reads, >99% single-molecule read accuracy) it also delivers the read length and accuracy needed to improve fine mapping and simplify the assembly of complex portions of the genome. SMRT Sequencing gives you the ability to:
- Rapidly screen and identify all variants
- Discover haplotype-specific markers
- Resolve difficult-to-sequence regions, regardless of size
- Confirm insertion sites of transgenes and validate gene editing events
 | Sample & Library Preparation |
| Obtain targeted sequences with flexible sample and library workflows |
 | Sequencing |
| Maximize output and turn-around time with adjustable run parameters on the Sequel System. |
 | Data Analysis |
| Make discoveries using bioinformatics tools in SMRT Analysis or PacBio DevNet. |
Application Brief: Learn more about these best practices for targeted sequencing
Spotlight: Codfish study employs target capture to explore evolution
Researchers used SMRT Sequencing and Roche NimbleGen target capture to resolve the copy number variation and organization of hemoglobin (Hb) genes and their flanking regions across eight species of codish. Explore this research further:
Khang Hoff, S.N., et al., 2018. Long-read sequence capture of the hemoglobin gene clusters across species. bioRxiv, Preprint.
Spotlight: Amplicon sequencing on a massive scale
Scientists used SMRT Sequencing to characterize cytochrome c oxidase I in amplicons from 20,000 unique arthropod specimens as part of the efforts to DNA fingerprint and register species to better understand biodiversity. This work revealed that through multiplexing of samples, the Sequel System enables sequencing of millions of samples per year. Explore this research further:
Hebert, P.D.N. et al., 2018. A Sequel to Sanger: amplicon sequencing that scales. BMC genomics, 19(1), p.219.
Selected Resources
- Van de Weyer, Anna-Lena et al. (2019) A Species-Wide Inventory of NLR Genes and Alleles in Arabidopsis thaliana. Cell
- Novák, Karel et al. (2019) Potential of TLR-gene diversity in Czech indigenous cattle for resistance breeding as revealed by hybrid sequencing Archives Animal Breeding
- Kao, Tzu-Tong et al. (2019) Low-copy nuclear sequence data confirm complex patterns of farina evolution in notholaenid ferns (Pteridaceae). Molecular phylogenetics and evolution
- Grech-Baran, Marta et al. (2018) Extreme resistance to Potato Virus Y in potato carrying the Rysto gene is mediated by a TIR-NLR immune receptor BioRxiv
- Bull, Simon E et al. (2018) Accelerated ex situ breeding of GBSS- and PTST1-edited cassava for modified starch. Science advances
- Kosicki, Michael et al. (2018) Repair of double-strand breaks induced by CRISPR-Cas9 leads to large deletions and complex rearrangements. Nature biotechnology
- Borel, Florie et al. (2018) Editing out five Serpina1 paralogs to create a mouse model of genetic emphysema. Proceedings of the National Academy of Sciences of the United States of America
- Verhey, Theodore B et al. (2018) Analysis of recombinational switching at the antigenic variation locus of the Lyme spirochete using a novel PacBio sequencing pipeline. Molecular microbiology
- Zimmer, Christoph T et al. (2018) Neofunctionalization of duplicated P450 genes drives the evolution of insecticide resistance in the brown planthopper. Current biology
- Milon, Nicolas et al. (2019) µLAS technology for DNA isolation coupled to Cas9-assisted targeting for sequencing and assembly of a 30 kb region in plant genome. Nucleic acids research
- Song, Yuning et al. (2019) Large Fragment Deletions Induced by Cas9 Cleavage While Not in BEs System in Rabbit Preprints with the Lancet
- Zong, Dan et al. (2019) Comparative analysis of the complete chloroplast genomes of seven Populus species: Insights into alternative female parents of Populus tomentosa. PloS one
- Jeong, Hyo-Bong et al. (2019) Single-molecule real-time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.). Plant biotechnology journal
- Arora, Heena et al. (2019) BjuWRR1, a CC-NB-LRR gene identified in Brassica juncea, confers resistance to white rust caused by Albugo candida. TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
- Ma, Ke-Yi et al. (2019) Construction of a Genomic Bacterial Artificial Chromosome (BAC) Library for the Prawn Macrobrachium rosenbergii and Initial Analysis of ZW Chromosome-Derived BAC Inserts. Marine biotechnology
- Susek, Karolina et al. (2019) Impact of Chromosomal Rearrangements on the Interpretation of Lupin Karyotype Evolution. Genes
- Lefoulon, Emilie et al. (2019) Large Enriched Fragment Targeted Sequencing (LEFT-SEQ) Applied to Capture of Wolbachia Genomes. Scientific reports
- Wei, Kang et al. (2019) A coupled role for CsMYB75 and CsGSTF1 in anthocyanin hyperaccumulation in purple tea. The Plant journal
- Thomas, Mark et al. (2019) Collateral damage and CRISPR genome editing. PLoS genetics
- Slesarev, Alexei et al. (2019) CRISPR/CAS9 targeted CAPTURE of mammalian genomic regions for characterization by NGS. Scientific reports
- Maggiolini, Flavia A M et al. (2019) Genomic inversions and GOLGA core duplicons underlie disease instability at the 15q25 locus. PLoS genetics
- Halo, Julia V et al. (2019) Origin and recent expansion of an endogenous gammaretroviral lineage in domestic and wild canids. Retrovirology
- Kawato, Satoshi et al. (2019) Crustacean Genome Exploration Reveals the Evolutionary Origin of White Spot Syndrome Virus. Journal of virology
- Chien, Chih-Cheng et al. (2019) Analysis of genetic diversity of Xanthomonas oryzae pv. oryzae populations in Taiwan. Scientific reports
- Serpas, Lee et al. (2019) Dnase1l3 deletion causes aberrations in length and end-motif frequencies in plasma DNA. Proceedings of the National Academy of Sciences of the United States of America
- Bai, Chang-Ming et al. (2019) Long-range PCR and high-throughput sequencing of Ostreid herpesvirus 1 indicate high genetic diversity and complex evolution process. Virology
- Patterson, Eric L et al. (2018) Glyphosate resistance and EPSPS gene duplication: Convergent evolution in multiple plant species. The Journal of heredity
- Brashear, Wesley A et al. (2018) Evolutionary conservation of Y Chromosome ampliconic gene families despite extensive structural variation. Genome research
- Aw, Wen C et al. (2018) Genotype to phenotype: Diet-by-mitochondrial DNA haplotype interactions drive metabolic flexibility and organismal fitness. PLoS genetics
- Klymiuk, Valentina et al. (2018) Cloning of the wheat Yr15 resistance gene sheds light on the plant tandem kinase-pseudokinase family. Nature communications
- Wu, Yongzhen et al. (2018) Deletions linked to PROG1 gene participate in plant architecture domestication in Asian and African rice. Nature communications
- Gautier, Mathieu et al. (2018) The genomic basis of color pattern polymorphism in the Harlequin ladybird. Current biology
- Turner, Joe et al. (2018) The sequence of a male-specific genome region containing the sex determination switch in Aedes aegypti. Parasites & vectors
- Van Ghelder, Cyril et al. (2018) Ma orthologous genes in Prunus spp. shed light on a noteworthy NBS-LRR cluster conferring differential resistance to root-knot nematodes. Frontiers in plant science
- Zhang, Zhaogui et al. (2018) A PECTIN METHYLESTERASE gene at the maize Ga1 locus confers male function in unilateral cross-incompatibility. Nature communications
- Poster: Baybayan, Primo et al. (2016) Application specific barcoding strategies for SMRT Sequencing
- Poster: Ranade, Swati et al. (2016) Immune regions are no longer incomprehensible with SMRT Sequencing
- Presentation: Berges, Helene et al. (2016) Long read sequencing technology to solve complex genomic regions assembly in plants
- Poster: Gu, Jenny et al. (2016) Targeted sequencing of genes from soybean using NimbleGen SeqCap EZ and PacBio SMRT Sequencing
- Pillai, Nisha (2018) Webinar: Assessing the targeted regions using a PacBio Amplicon analysis applications
- Kujawa, Steve (2017) Webinar: PacBio targeted sequencing of long amplicons using PCR or hybrid capture
- Turner, Stephen (2017) Webinar: An introduction to PacBio’s long-read sequencing & how it has been used to make important scientific discoveries
- (2017) Tutorial: Long amplicon analysis application [SMRT Link v5.0.0]
- Wing, Rod (2017) PAG PacBio Workshop: Introducing 5 new high-quality PacBio genome assemblies for rice to help solve the 10-billion people question
- Ranade, Swati (2016) AGBT Virtual Poster: Immune regions are no longer incomprehensible with SMRT Sequencing
- Berges, Hélène (2016) PAG Conference: Long reads sequencing technology to solve complex genomic regions assembly in plants
- SMRT Sequencing Brochure: Delivering highly accurate long reads to drive discovery in life science (2019)
- Application Brief: Targeted sequencing for amplicons – Best Practices (2019)
- PacBio Certified Service Providers (2019)
- Case Study: SMRT sequencing brings clarity to HIV vaccine and transplant research at the Wisconsin national primate research center (2017)
- Application Note: Multiplex target enrichment using barcoded multi-kilobase fragments and probe-based capture technologies (2016)
- Certified Service Provider Profile: Institute for Genome Sciences expands long-read sequencing services with new Sequel System (2016)
- Application Note: Targeted sequencing and chromosomal haplotype assembly using Cergentis TLA technology with SMRT Sequencing (2016)