The present disclosure provides a method for identifying a nucleic acid, which may comprise incubating a cell that has been or is suspected of having been transfected or transduced with an exogenous ribonucleic acid (RNA) molecule or an exogenous deoxyribonucleic (DNA) molecule. Next, a morphological change of the cell may be identified. Next, contents of the cell may be processed to identify a nucleic acid sequence or a peptide, polypeptide, or protein or a sequence of the peptide, polypeptide, or protein. Next, the nucleic acid sequence or the peptide, polypeptide, or protein or the sequence of the peptide, polypeptide, or protein may be analyzed to determine an exogenous sequence of the exogenous RNA molecule or the exogenous DNA molecule. Next, the exogenous sequence of the exogenous RNA molecule or the exogenous DNA molecule may be identified as effecting the morphological change of the cell. The exogenous RNA molecule or the exogenous DNA molecule may encode genes or peptides, polypeptides, or proteins that inhibit, activate, or modulate a biochemical pathway within the cell, thereby causing the morphological change of the cell.

The present disclosure provides a HTP microbial genomic engineering platform that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. The HTP genomic engineering platform described herein is microbial strain host agnostic and therefore can be implemented across taxa. Furthermore, the disclosed platform can be implemented to modulate or improve any microbial host parameter of interest.

A HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols is provided. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. Methods for isolating clonal populations derived from individual fungal spores are also provided.

The present invention relates to a recombinant microorganism for malonyl-CoA detection in which a type III polyketide synthase-encoding gene is inserted in the genome or in which a recombinant vector containing the gene is introduced; a method of screening a malonyl-CoA production-inducing substance using the recombinant microorganism; a method of screening a gene which is involved in increased malonyl-CoA production; and a method comprising knocking down the gene, screened by the method, in a microorganism, thus increasing the production of malonyl-CoA in the microorganism, and producing a useful substance in the microorganism using malonyl-CoA as a precursor. The use of the biosensor according to the present invention provides single-step signal generation, utilization in various microorganisms, utilization in self-fluorescent microorganisms, a simple construction method, and a simple screening method. In addition, when the present invention is combined with high-throughput screening, it has advantages in that strains having increased malonyl-CoA producing ability can be screened very easily and rapidly (˜3 days) and can be applied directly to the malonyl-CoA-based production of useful compounds.

The present invention relates to a recombinant microorganism for malonyl-CoA detection in which a type III polyketide synthase-encoding gene is inserted in the genome or in which a recombinant vector containing the gene is introduced; a method of screening a malonyl-CoA production-inducing substance using the recombinant microorganism; a method of screening a gene which is involved in increased malonyl-CoA production; and a method comprising knocking down the gene, screened by the method, in a microorganism, thus increasing the production of malonyl-CoA in the microorganism, and producing a useful substance in the microorganism using malonyl-CoA as a precursor. The use of the biosensor according to the present invention provides single-step signal generation, utilization in various microorganisms, utilization in self-fluorescent microorganisms, a simple construction method, and a simple screening method. In addition, when the present invention is combined with high-throughput screening, it has advantages in that strains having increased malonyl-CoA producing ability can be screened very easily and rapidly (˜3 days) and can be applied directly to the malonyl-CoA-based production of useful compounds.

The invention relates to mammalian haploid embryonic stem cells and methods for the production of such stem cells. The inventions also relates to a cell culture and a cell line of mammalian haploid embryonic stem cells.

Compositions and methods for gene editing are provided. The methods employ an oligo-based annealing mechanism that is rooted in the process of DNA replication rather than homologous recombination (HR). Oligo incorporation efficiencies are comparable and often exceed those of CRISPR/cas9 editing without the need for double strand breaks (DSBs). By relying on the multiplex annealing of oligos rather than DSBs the process is highly scalable across a genomic region of interest and can generate many scarless modifications of a chromosome simultaneously. Combinatorial genomic diversity can be generated across a population of cells in a single transformation event; genomic landscapes can be traversed through successive iterations of the process, and genome-wide changes can be massively parallelized and amplified through systematic strain mating.

The present disclosure provides a HTP microbial genomic engineering platform that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. The HTP genomic engineering platform described herein is microbial strain host agnostic and therefore can be implemented across taxa. Furthermore, the disclosed platform can be implemented to modulate or improve any microbial host parameter of interest.

Methods for generating synthetic genomes, for example synthetic genomes having desired properties or viable genomes of reduced size, are disclosed. Also disclosed are synthetic genomes produced by the methods disclosed herein and synthetic cells containing the synthetic genomes disclosed herein.

Methods for identifying biosynthetic gene clusters that include genes for producing compounds that interact with specific target proteins are disclosed. Some methods relate to bioinformatics methods for identifying and/or prioritizing biosynthetic gene clusters. Related systems, components, and tools for the identification and expression of such gene clusters are also disclosed.