Abstract: Methods and systems are provided for generating and utilizing a genetically engineered bacterium comprising a modification in a nifA gene or homolog thereof that can result in a bacterium with modified regulation of nitrogen fixation or assimilation activity. Genetically engineered bacteria with modified nitrogen fixation or assimilation activity are also provided. The genetically engineered bacterium can fix nitrogen in the presence of nitrogen (e.g., ammonium), and/or oxygen.

Abstract: The invention is a novel method of sequencing nucleic acids involving making and sequencing a library of double stranded target nucleic acids containing a linear partially single-stranded adaptor.

Abstract: The invention is a novel method of separately sequencing each strand of a nucleic acid involving the use of an adaptor comprising a strand cleavage site or a strand synthesis termination site. The adaptor may also be self-priming at the strand cleavage site.

Abstract: The present disclosure provides engineered gram-positive microbes that are able to fix atmospheric nitrogen and deliver such to plants in a targeted, efficient, and environmentally sustainable manner. The utilization of the taught microbial products will enable farmers to realize more productive and predictable crop yields without the nutrient degradation, leaching, or toxic runoff associated with traditional synthetically derived nitrogen fertilizer.

Abstract: The invention is a novel method of separately sequencing each strand of a nucleic acid involving the use of an adaptor comprising a strand cleavage site or a strand synthesis termination site. The adaptor may also be self-priming at the strand cleavage site.

Abstract: A genetically engineered bacterium with a modification in one or more genes selected from: NAC, ptsH, iaaA, gltA, pga, sdiA, fimA1, fimA2, fimA3, fimA4, wzxE, bolA, iscR, fhuF, sodA, sodB, sodC, FNR, arcA, arcB, rpoS, sbnA, treA, treB, phoP, phoQ, yjjPB, ychM, dauA, actP, yusV1, yieL1, yieL2, yieL3, yieL4, pgaB, rafA, melA, uidA, manA, abfA, abnA, lacZ, and yusV2 is disclosed. Methods of use of the genetically engineered bacterium to provide fixed nitrogen to plants, and compositions including the bacterium are also provided.

Abstract: The invention is a novel method of making and using a library such as a sequencing library of single stranded circular nucleic acid templates via splint ligation.

Abstract: The invention is a novel method of isolating long nucleic acids from samples suitable for nucleic acid sequencing. The method is especially suitable for isolating low-concentration nucleic acids, e.g., viral nucleic acids, from clinical samples.

Abstract: Methods for the rapid detection of the presence or absence of Mycobacterium tuberculosis (MTB) and other members of the MTB-complex in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the esxJ gene, along with kits are provided that are designed for the detection of MTB.

Abstract: The invention is a novel method of sequencing nucleic acids involving making and sequencing a library of double stranded target nucleic acids containing a linear partially single-stranded adaptor.

Abstract: Methods for the rapid detection of the presence or absence of Mycobacterium tuberculosis (MTB) resistant to rifampicin (MTB-RIF) and/or MTB resistant to isoniazid (MTB-INH) in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the genes for rpoB, inhA, and katG, along with kits are provided that are designed for the detection of MTB-RIF and/or MTB-INH.

Abstract: The invention is a novel method of isolating long nucleic acids from samples suitable for nucleic acid sequencing. The method is especially suitable for isolating low-concentration nucleic acids, e.g., viral nucleic acids, from clinical samples.

Abstract: The invention is a novel method of making and using a library such as a sequencing library of single stranded circular nucleic acid templates via splint ligation.

Abstract: Methods for the rapid detection of the presence or absence of Mycobacterium tuberculosis (MTB) and other members of the MTB-complex in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the esxJ gene, along with kits are provided that are designed for the detection of MTB.

Abstract: Methods for the rapid detection of the presence or absence of a single-base deletion in the tcdC gene of Clostridium difficile in a biological or nonbiological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes, and kits are provided that are designed for the detection of the single-base deletion.

Abstract: The invention is a novel method of isolating long nucleic acids from samples suitable for nucleic acid sequencing. The method is especially suitable for isolating low-concentration nucleic acids, e.g., viral nucleic acids, from clinical samples.

Abstract: Methods for the rapid detection of the presence or absence of mecC-containing Staphylococcus aureus (mecC-MRSA) in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the genes for mecC-MRSA, along with kits are provided that are designed for the detection of mecC-MRSA.

Abstract: Methods for the rapid detection of the presence or absence of Mycobacterium tuberculosis (MTB) resistant to rifampicin (MTB-RIF) and/or MTB resistant to isoniazid (MTB-INH) in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the genes for rpoB, inhA, and katG, along with kits are provided that are designed for the detection of MTB-RIF and/or MTB-INH.

Abstract: Methods for the rapid detection of the presence or absence of Mycobacterium tuberculosis (MTB) resistant to rifampicin (MTB-RIF) and/or MTB resistant to isoniazid (MTB-INH) in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the genes for rpoB, inhA, and katG, along with kits are provided that are designed for the detection of MTB-RIF and/or MTB-INH.

Abstract: Methods for the detection of the presence or absence of a single nucleotide polymorphism (SNP) in a target nucleic acid in a biological or non-biological sample are described. The methods can include performing an amplifying step using primers, a hybridizing step utilizing a melting probe, and a detecting step, wherein a decreasing shift in the predefined melting temperature of the melting probe is indicative of the presence of the SNP in the sample and wherein the absence of a decreasing shift in the predefined melting temperature of the melting probe is indicative of the absence of the SNP in the sample.