Instruct: Identify the main category of Biorxiv papers based on the titles and abstracts
Query: Massively parallel characterization of engineered transcript isoforms using direct RNA sequencing Transcriptional terminators signal where transcribing RNA polymerases (RNAPs) should halt and disassociate from DNA. However, because termination is stochastic, two different forms of transcript could be produced: one ending at the terminator and the other reading through. An ability to control the abundance of these transcript isoforms would offer bioengineers a mechanism to regulate multi-gene constructs at the level of transcription. Here, we explore this possibility by repurposing terminators as  transcriptional valves which can tune the proportion of RNAP read-through. Using one-pot combinatorial DNA assembly we construct 1183 transcriptional valves for T7 RNAP and show how nanopore-based direct RNA sequencing (dRNA-seq) can be used to simultaneously characterize the entire pool at a nucleotide resolution in vitro and unravel genetic design principles to tune and insulate their function using nearby sequence context. This work provides new avenues for controlling transcription and demonstrates the value of long-read sequencing for exploring complex sequence-function landscapes.
25
The categories of this paper are: bioengineering
27
The categories of this paper are: pathology
11
The categories of this paper are: cognition
12
The categories of this paper are: behavior
17
The categories of this paper are: molecular
24
The categories of this paper are: cancer
28
The categories of this paper are: communication
29
The categories of this paper are: education
32
The categories of this paper are: zoology
26
The categories of this paper are: biochemistry
8
The categories of this paper are: genomics
15
The categories of this paper are: developmental
7
The categories of this paper are: ecology
16
The categories of this paper are: microbiology
31
The categories of this paper are: paleontology
6
The categories of this paper are: plant