Sequence plants and animals with confidence
Large and complex genomes present unique challenges such as polyploidy and high levels of heterozygosity. PacBio offers the long reads with high accuracy necessary to overcome these challenges.
Insect Biology
Insect Biology Develop disease prevention methods, understand basic biology, and improve pest control using a population or a single individual.
Genome from a single mosquito | Global Ant Genomics Alliance | Corn leaf aphid genome
Crop Improvements
Crop ImprovementsUncover new biology to improve crop health, conduct trait selection, and enhance breeding efficiency.
Garlic transcriptome study | Autopolyploid sugarcane genome | Structural variants in grapevine
Animal Health and Breeding
Animal Health and BreedingInvestigate animal genetics to study patterns of inheritance, immunology, and domestication in high resolution.
Phased diploid genome assembly | Canine domestication genes | MHC in primates
Marine Biodiversity
Marine BiodiversityDive into the depths of marine ecosystems to study evolution, reveal insights into developmental and address the challenges of climate change.
Clown fish genome | Coral microbiome characterization | Hemoglobin gene clusters in codfish
Conservation
ConservationExamine the genetic diversity of species-at-risk to support assisted reproduction, wildlife management, and sustainability.
Bluefin tuna genomes | Turtle dove population decline | 25 genomes effort for conservation
2019 Plant and Animal Sciences SMRT Grant Program is Now Open!
Be Bold – Sequence with Confidence
Show us in 90-seconds or less how a high-quality genome of your favorite plant or animal will advance your science for a chance to win free SMRT Sequencing. Learn More
 | Whole Genome Sequencing Produce reference-quality genomes with fully phased haplotypes |
 | Structural Variant Calling Use high-sensitivity variant calls with low false discovery rate to gain actionable insights across populations |
 | Targeted Sequencing Choose from flexible options to target regions to access to all variants even in the most complex regions |
 | RNA Sequencing Access full-length transcript sequences to identify novel genes and transcripts and improve genome annotation |
Selected Resources
- Wenger, Aaron M et al. (2019) Highly-accurate long-read sequencing improves variant detection and assembly of a human genome bioRxiv
- Kingan, Sarah et al. (2018) A high-quality de novo genome assembly from a single mosquito using PacBio sequencing BioRxiv
- Beaulaurier, John et al. (2018) Deciphering bacterial epigenomes using modern sequencing technologies Nature reviews. Genetics
- Editorial et al. (2018) A reference standard for genome biology Nature biotechnology
- Matthews, Benjamin J et al. (2018) Improved reference genome of Aedes aegypti informs arbovirus vector control. Nature
- Laverty, Kaitlin U et al. (2018) A physical and genetic map of Cannabis sativa identifies extensive rearrangement at the THC/CBD acid synthase locus. Genome research
- Chao, Yuehui et al. (2018) Analysis of transcripts and splice isoforms in red clover (Trifolium pratense L.) by single-molecule long-read sequencing. BMC plant biology
- Gong, Gaorui et al. (2018) Chromosomal-level assembly of yellow catfish genome using third-generation DNA sequencing and Hi-C analysis. GigaScience
- Roach, Michael J et al. (2018) Population sequencing reveals clonal diversity and ancestral inbreeding in the grapevine cultivar Chardonnay. PLoS genetics
- Kim, Bo-Mi et al. (2018) The genome of common long-arm octopus Octopus minor. GigaScience
- Koren, Sergey et al. (2018) De novo assembly of haplotype-resolved genomes with trio binning. Nature biotechnology
- Mehta, Devang et al. (2018) A new full-length circular DNA sequencing method for viral-sized genomes reveals that RNAi transgenic plants provoke a shift in geminivirus populations in the field. Nucleic acids research
- Zhang, Jisen et al. (2018) Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. Nature genetics
- Wang, Dan et al. (2018) Cas9-mediated allelic exchange repairs compound heterozygous recessive mutations in mice. Nature biotechnology
- Wen, Ming et al. (2018) Exploring the genome and transcriptome of the cave nectar bat Eonycteris spelaea with PacBio long-read sequencing. GigaScience
- 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
- Fallon, Timothy R et al. (2018) Firefly genomes illuminate parallel origins of bioluminescence in beetles. eLife
- Chen, Wenbo et al. (2018) Genome sequence of the corn leaf aphid (Rhopalosiphum maidis Fitch) BioRxiv
- Hoff, Siv Nam Khang et al. (2018) Long-read sequence capture of the hemoglobin gene clusters across gadid species. Molecular ecology resources
- Gupta, Ishaan et al. (2018) Single-cell isoform RNA sequencing characterizes isoforms in thousands of cerebellar cells. Nature biotechnology
- Dougherty, Max L et al. (2018) Transcriptional fates of human-specific segmental duplications in brain. Genome research
- Tran, Hue T M et al. (2018) Use of a draft genome of coffee (Coffea arabica) to identify SNPs associated with caffeine content. Plant biotechnology journal
- Mathew, Lolita G et al. (2018) ABC transporter mis-splicing associated with resistance to Bt toxin Cry2Ab in laboratory- and field-selected pink bollworm. Scientific reports
- Bull, Simon E et al. (2018) Accelerated ex situ breeding of GBSS- and PTST1-edited cassava for modified starch. Science advances
- Nyima, Tashi et al. (2018) An improved high-quality genome assembly and annotation of Qingke, Tibetan hulless barley BioRxiv
- Sun, Silong et al. (2018) Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nature genetics
- Nudelman, German et al. (2018) High resolution annotation of zebrafish transcriptome using long-read sequencing. Genome research
- Yan, Bo et al. (2018) SMRT-Cappable-seq reveals complex operon variants in bacteria. Nature communications
- Sutton, Jolene et al. (2018) A high-quality, long-read de novo genome assembly to aid conservation of Hawaii’s last remaining crow species Genes
- VanBuren, Robert et al. (2018) A near complete, chromosome-scale assembly of the black raspberry (Rubus occidentalis) genome. GigaScience
- Li, Yao et al. (2018) A survey of transcriptome complexity in Sus scrofa using single-molecule long-read sequencing. DNA research
- Redondo, Miguel A et al. (2018) Contrasting distribution patterns between aquatic and terrestrial Phytophthora species along a climatic gradient are linked to functional traits. The ISME journal
- Löber, Ulrike et al. (2018) Degradation and remobilization of endogenous retroviruses by recombination during the earliest stages of a germ-line invasion. Proceedings of the National Academy of Sciences of the United States of America
- Zhou, Chao et al. (2018) Identification and analysis of adenine N6-methylation sites in the rice genome. Nature plants
- Heeger, Felix et al. (2018) Long-read DNA metabarcoding of ribosomal RNA in the analysis of fungi from aquatic environments. Molecular ecology resources
- Poster: Kingan, Sarah B. et al. (2019) A low DNA input protocol for high-quality PacBio de novo genome assemblies from single invertebrate individuals
- Poster: Tseng, Elizabeth et al. (2019) Haplotyping using full-length transcript sequencing reveals allele-specific expression
- Poster: Vierra, Michelle et al. (2019) Library prep and bioinformatics improvements for full-length transcript sequencing on the PacBio Sequel System
- Poster: Peluso, Paul et al. (2019) Single molecule High-Fidelity (HiFi) Sequencing with >10 kb libraries
- Poster: Blethrow, J. Sisneros, N. et al. (2018) Best practices for whole genome sequencing using the Sequel System
- Poster: Vierra, Michelle et al. (2018) Full-length transcript profiling with the Iso-Seq method for improved genome annotations
- Poster: Korlach, Jonas et al. (2018) High-quality de novo genome assembly and intra-individual mitochondrial instability in the critically endangered kakapo
- Poster: Heiner, Cheryl et al. (2018) Multiplexed complete microbial genomes on the Sequel System
- Poster: Kingan, S., et al. (2018) Best practices for diploid assembly of complex genomes using PacBio: A case study of Cascade Hops
- Poster: Vierra, Michelle et al. (2018) Characterizing the pan-genome of maize with PacBio SMRT Sequencing
- Poster: Concepion, C., et al. (2018) De novo assembly and preliminary annotation of the Schizocardium californicum genome
- Poster: Tseng, E., et al. (2018) Haplotyping of full-length transcript reads from long-read sequencing can reveal allelic imbalances in isoform expression
- Poster: Concepcion, G., et al. (2018) Structural variant detection in crops using PacBio SMRT Sequencing
- Poster: Vierra, M. et al. (2017) From RNA to full-length transcripts: The PacBio Iso-Seq method for transcriptome analysis and genome annotation
- Poster: Kingan, Sarah et al. (2017) A high-quality genome assembly of SMRT sequences reveals long range haplotype structure in the diploid mosquito Aedes aegypti
- Poster: Korlach, Jonas et al. (2017) De novo PacBio long-read assembled avian genomes correct and add to genes important in neuroscience and conservation research
- Poster: Kingan, S. et al. (2017) A high-quality genome assembly of SMRT Sequences reveals long-range haplotype structure in the diploid mosquito Aedes aegypti
- Poster: Warr, A. et al. (2017) High-quality, highly contiguous re-assembly of the pig genome
- Poster: Concepcion, G. et al. (2017) Phased diploid genome assembly with single-molecule real-time sequencing
- Poster: Heiner, C. et al. (2017) Profiling complex population genomes with highly accurate single molecule reads: cow rumen microbiomes
- Poster: Clark, T et al. (2017) Full-length cDNA sequencing on the PacBio Sequel platform
- Korlach, Jonas and Corney, Dave (2018) Webinar: A new paradigm in DNA sequencing – Highly accurate single-molecule long reads
- (2018) Tutorial: Iso-Seq analysis application [SMRT Link v6.0.0]
- Block, Barbara and Peluso, Paul (2018) Webinar: Assembling high-quality genomes to solve nature’s mysteries
- Smith, Tim (2018) User Group Meeting: Application of genome assembly in Bovinae species
- Korlach, Jonas (2018) User Group Meeting: Low-input workflow for PacBio de novo genome assemblies
- Pillai, Nisha (2018) Webinar: Assessing the targeted regions using a PacBio Amplicon analysis applications
- Pillai, Nisha (2018) Webinar: Survey of transcriptome diversity using Iso-Seq analysis
- (2018) Educational Video: Step 1 – from sample to sequencing data for de novo assembly
- (2018) Educational Video: Step 2 – de novo assembly of a genome
- Pillai, Nisha (2018) Webinar: A sketch of assembly recipes for PacBio data
- Kuo, Richard (2018) Webinar: Using Iso-Seq analysis to build a better annotation
- Ballard, Bill (2018) PAG Conference: Domestication: through the canines of a dingo
- Renner, Tanya (2018) PAG Conference: Long-read sequencing reveals complex genomic architecture in independent carnivorous plant lineages
- Williams, John (2018) PAG Conference: Using cattle subspecies crosses to explore chromosome of origin expression through Iso-seq analysis
- Hatas, Emily (2017) Webinar: SMRT Sequencing applications in plant and animal sciences: an overview
- 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
- Neafsey, Daniel (2017) AGBT Conference: A community effort using multiple technologies to produce a dramatically improved genome assembly of the Zika virus mosquito vector
- Roy, Margaret (2017) AGBT PacBio Workshop: De novo sequencing of the naked mole rat genome
- Sedlazeck, Fritz (2017) AGBT Virtual Poster: Quantifying the impact of improved genome assemblies on functional genomics
- Simon, Matt (2017) Video: Get ready for super coffee strains. Scientists just sequenced the plant’s DNA
- (2017) Tutorial: Long amplicon analysis application [SMRT Link v5.0.0]
- Jarvis, Erich (2017) PAG PacBio Workshop: Comparative analyses of next generation technologies for generating chromosome-level reference genome assemblies
- Johnson, Rebecca (2017) PAG PacBio Workshop: De novo sequencing of the koala genome
- Matthews, Ben (2017) PAG PacBio Workshop: Genome assembly and molecular genetics of the dengue, yellow fever, and zika vector Aedes aegypti
- Wing, Rod (2017) PAG PacBio Workshop: Introducing 5 new high-quality PacBio genome assemblies for rice to help solve the 10-billion people question
- Korlach, Jonas (2017) PAG PacBio Workshop: SMRT Sequencing for complete genomes
- Kuo, Richard (2017) PAG PacBio Workshop: Using the Iso-Seq method to fill in your a_no__tion
- PacBio Certified Service Providers (2018)
- Application Brief: Large genome whole genome sequencing – Best Practices (2018)
- Application Brief: Targeted Sequencing of Amplicons – Best Practices (2018)
- Application Brief: Long-read RNA sequencing – Best Practices (2018)
- SMRT Sequencing Brochure: Revolutionize genomics with SMRT Sequencing (2018)
- Infographic: Gold-standard reference genomes accelerate science (2018)
- De Novo Assembly Brochure: Assembly options for your SMRT Sequencing data (2018)
- Technical Note: Preparing libraries for PacBio whole genome sequencing for de novo assembly – Quality control and size selection (2018)
- Technical Note: Preparing DNA for PacBio whole genome sequencing for de novo assembly – Quality control and shearing (2018)
- Technical Note: Preparing samples for PacBio whole genome sequencing for de novo assembly – Collection and storage (2018)
- Case Study: Pioneering a pan-genome reference collection (2018)
- Case Study: SMRT sequencing brings clarity to HIV vaccine and transplant research at the Wisconsin national primate research center. (2017)
- Case Study: PacBio and Dovetail – For cashew genome, combining technologies yields chromosome-scale assembly. (2017)
- Case Study: Breeding a better Cabernet – SMRT Sequencing provides detailed view of grape genome. (2016)
- Application Note: Multiplex target enrichment using barcoded multi-kilobase fragments and probe-based capture technologies (2016)
- Case Study: First comprehensive view of maize genome reveals regulatory and structural mechanisms (2016)