Physico-chemical properties reflect the functional and structural characteristics of a protein. The comparative study of the physicochemical properties is important to know role of a protein in exploring its molecular evolution. A number of online and offline tools are available for calculating the physico-chemical properties of a single protein sequence. However, a tool is not available for a comparative study with graphical visualization of Multi-FASTA sequences. Hence, we describe the development and utility of MFPPI V.1.0 (a web interface developed in JAVA platform) to input each FASTA sequence from Multi-FASTA file into the ProtParam web server for the calculation of physico-chemical properties. MFPPI V.1.0 calculates different physico-chemical properties for a given set of proteins in a single run and saves the data in the MSExcel sheet. Furthermore, it provides a graphical representation of protein physico-chemical properties for analysis and visualization of data in a user-friendly manner. Therefore, the output from the analysis helps to understand compositional changes and functional relationship in evolution among organisms. We have demonstrated the utility of MFPPI V.1.0 using 17 mtATP6 protein sequences from different mammalian species. It is available for free at http://insilicogenomics.in/mfpcalc/mfppi.html.

We sketch a procedure to capture general non-invertible symmetries of a d-dimensional quantum field theory in the data of a higher-category, which captures the local properties of topological defects associated to the symmetries. We also discuss global fusions of topological defects, where some of the directions of the defects are wrapped along compact sub-manifolds in spacetime while some others are left non-compact, and argue that such a global fusion is described as a local fusion plus a gauging of a higher-categorical symmetry localized along the compact sub-manifold. Recently some fusions of topological defects were discussed in the literature where the dimension of topological defects seems to jump under fusion. We explain how such fusions can be understood in terms of fusion operations of a higher-category, where the dimension does not jump. We also discuss how a 0-form sub-symmetry of a higher-categorical symmetry can be gauged and describe the higher-categorical symmetry of the theory obtained after gauging. This provides a procedure for constructing non-invertible higher-categorical symmetries starting from invertible higher-form or higher-group symmetries and gauging a 0-form symmetry. We illustrate this procedure by constructing non-invertible 2-categorical symmetries in 4d gauge theories and non-invertible 3-categorical symmetries in 5d and 6d theories. We check some of the results obtained using our approach against the results obtained using a recently proposed approach based on 't Hooft anomalies.

Finger millet [Eleusine coracana (L.) Gaertn.] is grown mainly by subsistence farmers in arid and semiarid regions of the world. To broaden its genetic base and to boost its production, it is of paramount importance to characterize and genotype the diverse gene pool of this important food and nutritional security crop. However, as a result of nonavailability of the genome sequence of finger millet, the progress could not be made in realizing the molecular basis of unique qualities of the crop. In the present investigation, attempts have been made to characterize the genetically diverse collection of 113 finger millet accessions through whole-genome genotyping-by-sequencing (GBS), which resulted in a genome-wide set of 23,000 single-nucleotide polymorphisms (SNPs) segregating across the entire collection and several thousand SNPs segregating within every accession. A model-based population structure analysis reveals the presence of three subpopulations among the finger millet accessions, which are in parallel with the results of phylogenetic analysis. The observed population structure is consistent with the hypothesis that finger millet was domesticated first in Africa, and from there it was introduced to India some 3000 yr ago. A total of 1128 gene ontology (GO) terms were assigned to SNP-carrying genes for three main categories: biological process, cellular component, and molecular function. Facilitated access to high-throughput genotyping and sequencing technologies are likely to improve the breeding process in developing countries, and as such, this data will be very useful to breeders who are working for the genetic improvement of finger millet. The genus Eleusine comprises 10 annual or perennial grasses growing commonly in the warm regions of the old world particularly in South Asia and eastern and central Africa. Finger millet (2n = 4x = 36), subsp. coracana, belongs to the family Poaceae, genus Eleusine in the tribe Eragrostideae. It is believed that Ethiopia or a neighboring region (Uganda) is the center of origin of finger millet, but in India, it was introduced probably over 3000 yr ago. The crop is grown mainly by subsistence farmers and serves as a food security crop because of high nutritional value and excellent storage qualities (Dida et al., 2007). Calcium content in Finger millet grains apparently can be 5 to 30 times more than in most cereals. Grain calcium contents as high as 450 mg 100 Abbreviations: GBS, genotyping-by-sequencing; GO, gene ontology; MAF, minimum allele frequency; MDS, multidimensional scaling; PCA, principal components analysis; SNP, single-nucleotide polymorphism. Core Ideas• GBS analysis generated 33 GB of data with 160 million raw reads.• Population structure analysis revealed three subpopulations among the finger millet accessions.• A total of 1128 GO terms were assigned to SNP carrying genes.• GBS analysis would be useful for future markerassisted breeding applications.

Finger millet (Eleusine coracana L.) is an important dry-land cereal in Asia and Africa because of its ability to provide assured harvest under extreme dry conditions and excellent nutritional properties. However, the genetic improvement of the crop is lacking in the absence of suitable genomic resources for reliable genotype-phenotype associations. Keeping this in view, a diverse global finger millet germplasm collection of 113 accessions was evaluated for 14 agro-morphological characters in two environments viz. ICAR-Vivekananda Institute of Hill Agriculture, Almora (E1) and Crop Research Centre (CRC), GBPUA&T, Pantnagar (E2), India. Principal component analysis and cluster analysis of phenotypic data separated the Indian and exotic accessions into two separate groups. Previously generated SNPs through genotyping by sequencing (GBS) were used for association mapping to identify reliable marker(s) linked to grain yield and its component traits. The marker trait associations were determined using single locus single trait (SLST), multi-locus mixed model (MLMM) and multi-trait mixed model (MTMM) approaches. SLST led to the identification of 20 marker-trait associations (MTAs) (p value<0.01 and <0.001) for 5 traits. While advanced models, MLMM and MTMM resulted in additional 36 and 53 MTAs, respectively. Nine MTAs were common out of total 109 associations in all the three mapping approaches (SLST, MLMM and MTMM). Among these nine SNPs, five SNP sequences showed homology to candidate genes of Oryza sativa (Rice) and Setaria italica (Foxtail millet), which play an important role in flowering, maturity and grain yield. In addition, 67 and 14 epistatic interactions were identified for 10 and 7 traits at E1 and E2 locations, respectively. Hence, the 109 novel SNPs associated with important agro-morphological traits, reported for the first time in this study could be precisely utilized in finger millet genetic improvement after validation.