FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4380081328> ?p ?o ?g. }

• W4380081328 abstract "Abstract Environmental DNA (eDNA) is revolutionizing species monitoring in nature. At the heart of any eDNA approach is the reliance upon sufficient DNA sequence information to satisfy the demands of eDNA assay specificity and sensitivity. The most common source of this information has been restricted to short barcoding regions of the mitochondrial genome (mitogenome) and marker genes. The use of these limited regions for assay design has often resulted in substantial trade‐offs in assay performance. With increased accessibility of full mitogenome assemblies, the potential for designing more robust eDNA assays is considerably enhanced. However, this also poses a new challenge to effectively identify suitable regions for assay design using considerably larger sequences. We present unikseq , a utility that uses words of length k ( k ‐mers) to identify unique regions in a reference sequence relative to tolerated (ingroup) and not‐tolerated (outgroup or non‐target) sequence sets, quickly and with low memory that can yield highly specific assays. We illustrate its application within an assay development workflow through use‐case examples for the design and validation of four quantitative real‐time polymerase chain reaction (qPCR)‐based assays selective for American bullfrog ( Rana [Lithobates] catesbeiana ), Burbot ( Lota lota ), Lake trout ( Salvelinus namaycush ), and Quillback rockfish ( Sebastes maliger ). The chosen target species vary in range, habitat, and degree of relatedness to their sympatric species that, consequently, impact eDNA assay design difficulty. We demonstrate the effectiveness of unikseq through assay validation and characterization using DNA from voucher specimens, synthetic DNA, and, where possible, field samples, to verify the specificity and sensitivity of the newly designed assays. By facilitating whole mitogenome sequence comparison, the creation of high‐performing eDNA assays is substantially enhanced. Having several adjustable parameters for specifying user requirements within unikseq , this approach can facilitate the identification of suitable regions for a broad range of applications requiring nucleotide sequence comparisons." @default.
• W4380081328 created "2023-06-10" @default.
• W4380081328 creator A5017539699 @default.
• W4380081328 creator A5019649276 @default.
• W4380081328 creator A5026905369 @default.
• W4380081328 creator A5036513064 @default.
• W4380081328 creator A5036530894 @default.
• W4380081328 creator A5042679732 @default.
• W4380081328 creator A5056936791 @default.
• W4380081328 creator A5071511946 @default.
• W4380081328 creator A5082440634 @default.
• W4380081328 date "2023-06-09" @default.
• W4380081328 modified "2023-10-17" @default.
• W4380081328 title "Enabling robust environmental DNA assay design with “unikseq” for the identification of taxon‐specific regions within whole mitochondrial genomes" @default.
• W4380081328 cites W1876995302 @default.
• W4380081328 cites W1966822396 @default.
• W4380081328 cites W2075479283 @default.
• W4380081328 cites W2121504310 @default.
• W4380081328 cites W2126184950 @default.
• W4380081328 cites W2131545754 @default.
• W4380081328 cites W2167757586 @default.
• W4380081328 cites W2398092094 @default.
• W4380081328 cites W2534363371 @default.
• W4380081328 cites W2547835471 @default.
• W4380081328 cites W2751583588 @default.
• W4380081328 cites W2782546270 @default.
• W4380081328 cites W2804504559 @default.
• W4380081328 cites W2809459002 @default.
• W4380081328 cites W2886938767 @default.
• W4380081328 cites W2901247228 @default.
• W4380081328 cites W2920873054 @default.
• W4380081328 cites W2947442414 @default.
• W4380081328 cites W2950419643 @default.
• W4380081328 cites W2953326935 @default.
• W4380081328 cites W3011266069 @default.
• W4380081328 cites W3102895527 @default.
• W4380081328 cites W3107492607 @default.
• W4380081328 cites W3111891248 @default.
• W4380081328 cites W3137682792 @default.
• W4380081328 cites W3137751639 @default.
• W4380081328 cites W3166490348 @default.
• W4380081328 cites W3200959268 @default.
• W4380081328 cites W3202682960 @default.
• W4380081328 cites W3213067154 @default.
• W4380081328 cites W4200137031 @default.
• W4380081328 cites W4223499778 @default.
• W4380081328 cites W4251751280 @default.
• W4380081328 cites W4283781176 @default.
• W4380081328 cites W4292333748 @default.
• W4380081328 doi "https://doi.org/10.1002/edn3.438" @default.
• W4380081328 hasPublicationYear "2023" @default.
• W4380081328 type Work @default.
• W4380081328 citedByCount "1" @default.
• W4380081328 countsByYear W43800813282023 @default.
• W4380081328 crossrefType "journal-article" @default.
• W4380081328 hasAuthorship W4380081328A5017539699 @default.
• W4380081328 hasAuthorship W4380081328A5019649276 @default.
• W4380081328 hasAuthorship W4380081328A5026905369 @default.
• W4380081328 hasAuthorship W4380081328A5036513064 @default.
• W4380081328 hasAuthorship W4380081328A5036530894 @default.
• W4380081328 hasAuthorship W4380081328A5042679732 @default.
• W4380081328 hasAuthorship W4380081328A5056936791 @default.
• W4380081328 hasAuthorship W4380081328A5071511946 @default.
• W4380081328 hasAuthorship W4380081328A5082440634 @default.
• W4380081328 hasBestOaLocation W43800813281 @default.
• W4380081328 hasConcept C104317684 @default.
• W4380081328 hasConcept C130217890 @default.
• W4380081328 hasConcept C141231307 @default.
• W4380081328 hasConcept C141732470 @default.
• W4380081328 hasConcept C18903297 @default.
• W4380081328 hasConcept C24586158 @default.
• W4380081328 hasConcept C2779969263 @default.
• W4380081328 hasConcept C54355233 @default.
• W4380081328 hasConcept C70721500 @default.
• W4380081328 hasConcept C78458016 @default.
• W4380081328 hasConcept C86803240 @default.
• W4380081328 hasConceptScore W4380081328C104317684 @default.
• W4380081328 hasConceptScore W4380081328C130217890 @default.
• W4380081328 hasConceptScore W4380081328C141231307 @default.
• W4380081328 hasConceptScore W4380081328C141732470 @default.
• W4380081328 hasConceptScore W4380081328C18903297 @default.
• W4380081328 hasConceptScore W4380081328C24586158 @default.
• W4380081328 hasConceptScore W4380081328C2779969263 @default.
• W4380081328 hasConceptScore W4380081328C54355233 @default.
• W4380081328 hasConceptScore W4380081328C70721500 @default.
• W4380081328 hasConceptScore W4380081328C78458016 @default.
• W4380081328 hasConceptScore W4380081328C86803240 @default.
• W4380081328 hasFunder F4320310787 @default.
• W4380081328 hasFunder F4320319973 @default.
• W4380081328 hasFunder F4320334593 @default.
• W4380081328 hasLocation W43800813281 @default.
• W4380081328 hasOpenAccess W4380081328 @default.
• W4380081328 hasPrimaryLocation W43800813281 @default.
• W4380081328 hasRelatedWork W2054304199 @default.
• W4380081328 hasRelatedWork W2073758462 @default.
• W4380081328 hasRelatedWork W2114233030 @default.
• W4380081328 hasRelatedWork W2386568544 @default.
• W4380081328 hasRelatedWork W2606537399 @default.
• W4380081328 hasRelatedWork W2791052014 @default.
• W4380081328 hasRelatedWork W2911813797 @default.

• next