Evidence map›Paper›PMID 31825599›Full record

ArticleACS synthetic biology2020

Host-Informed Expression of CRISPR Guide RNA for Genomic Engineering in

Neil C Dalvie, Justin Leal, Charles A Whittaker, Yuchen Yang, Joseph R Brady, Kerry R Love, J Christopher Love

Abstract read
In one paragraph

Article in ACS synthetic biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.

0numbers the graph read from it
0cells of the map it votes in
40citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

40 citing papers in PubMed.

  1. Article
  2. Article
  3. Pichia-CLM: A language model-based codon optimization pipeline forProceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. Review
  11. Article
  12. Applications of the Methylotrophic YeastJournal of fungi (Basel, Switzerland) · 2024
    Review
  13. Comparison of CRISPR-MAD7 and CRISPR-Cas9 for Gene Disruptions inJournal of fungi (Basel, Switzerland) · 2024
    Article
  14. Article
  15. Article
  16. Multiplex Marker-Less Genome Integration in Pichia pastoris Using CRISPR/Cas9.Methods in molecular biology (Clifton, N.J.) · 2024
    Article
  17. Article
  18. Genetic tools for metabolic engineering ofEngineering microbiology · 2023
    Review
  19. Review
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Neil C DalvieDepartment of Chemical Engineering , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139 , United States.ORCID 0000-0002-7912-0309
Justin LealDepartment of Chemical Engineering , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139 , United States.
Charles A WhittakerThe Koch Institute for Integrative Cancer Research , Massachusetts Institute of Technology , Cambridge , Massachusetts 01239 , United States.
Yuchen YangDepartment of Chemical Engineering , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139 , United States.
Joseph R BradyDepartment of Chemical Engineering , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139 , United States.
Kerry R LoveDepartment of Chemical Engineering , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139 , United States.
J Christopher LoveDepartment of Chemical Engineering , Massachusetts Institute of Technology , Cambridge , Massachusetts 02139 , United States.ORCID 0000-0003-0921-3144

Funding

VIRUS PRODUCTION COREP30CA014051 · NCI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Paula T Hammond · 1985 to 2026
$93.9M
Interdepartmental Biotechnology Training ProgramT32GM008334 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI WITTRUP, KARL DANE · 1989 to 2018
$15.2M
NCI NIH HHS P30 CA014051NIGMS NIH HHS T32 GM008334
6 · The paper itself

Abstract

There is growing interest in the use of nonmodel microorganisms as hosts for biopharmaceutical manufacturing. These hosts require genomic engineering to meet clinically relevant product qualities and titers, but the adaptation of tools for editing genomes, such as CRISPR-Cas9, has been slow for poorly characterized hosts. Specifically, a lack of biochemical characterization of RNA polymerase III transcription has hindered reliable expression of guide RNAs in new hosts. Here, we present a sequencing-based strategy for the design of host-specific cassettes for modular, reliable, expression of guide RNAs. Using this strategy, we achieved up to 95% gene editing efficiency in the methylotrophic yeast

Indexed as

CRISPR-Cas SystemsGenome, Fungal3' Untranslated RegionsBase SequenceBiological ProductsFungal ProteinsGene EditingGene Knockout TechniquesGlycerol KinaseGlycosylationPhenotypePromoter Regions, GeneticProtein Processing, Post-TranslationalRNA, Guide, CRISPR-Cas SystemsRNA Polymerase IIISaccharomycetales3' Untranslated RegionsBiological ProductsFungal ProteinsGlycerol KinaseRNA, Guide, CRISPR-Cas SystemsRNA Polymerase IIIalternative hostPichia pastorisrecombinant proteinRNA Pol-IIItRNA

Identifiers

PMID31825599
PMCPMC7814401

What Socratic holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.