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Puroindoline allelic diversity in Indian wheat germplasm and identification of new allelic variants.

Kumar R, Arora S, Singh K, Garg M - Breed. Sci. (2015)

Bottom Line: We classified these 82 varieties into different hardness categories with reference to international and Indian systems of classification.The majority of Indian wheat varieties were categorized as hard.This study revealed that unexplored Indian wheat germplasm can be a good source of genetic variability for both Pina and Pinb genes, helping in marker-assisted breeding and in obtaining wheat with different textural properties.

View Article: PubMed Central - PubMed

Affiliation: National Agri-Food Biotechnology Institute , Mohali-160071, Punjab , India.

ABSTRACT
Grain hardness is an important quality trait that influences product development in wheat. This trait is governed by variation in puroindoline proteins (PINA and PINB). Our study evaluated 551 Indian wheat germplasm lines for diversity in Pina and Pinb genes. Eighty-two lines were shortlisted for full length sequencing and grain hardness studies. Sequencing studies identified six unknown alleles: two for the Pina gene and four for the Pinb gene. Five of them were novel with non-synonymous changes in the corresponding amino acid sequences. Identified mutations in the deduced mature proteins and their pre- and pro-peptides influenced the hardness characteristics of the grain. We classified these 82 varieties into different hardness categories with reference to international and Indian systems of classification. The majority of Indian wheat varieties were categorized as hard. This study revealed that unexplored Indian wheat germplasm can be a good source of genetic variability for both Pina and Pinb genes, helping in marker-assisted breeding and in obtaining wheat with different textural properties.

No MeSH data available.


A: Sequence of Pina gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represents pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple deletions, complete deletions, and insertions are not shown here, i.e., Pina-D1b, k, r, s, u. B: Sequence of Pinb gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represent pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple substitutions, deletions, complete deletions, and insertions are not shown here, i.e., Pinb-D1h, i, j, k, m, n, o.
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f1-65_319: A: Sequence of Pina gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represents pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple deletions, complete deletions, and insertions are not shown here, i.e., Pina-D1b, k, r, s, u. B: Sequence of Pinb gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represent pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple substitutions, deletions, complete deletions, and insertions are not shown here, i.e., Pinb-D1h, i, j, k, m, n, o.

Mentions: We identified six new allelic variants: two for Pina and four for Pinb (Fig. 1). The Pina and Pinb alleles resulted from SNPs in the signal peptide and functional part of the coding region, respectively. Among the two Pina alleles, one had SNP from C to T, at position 41 (Fig. 1A), in the pre-peptide part of the signal peptide that changed amino acid Ala −15 to Val (Table 1). The second allele had two mutations, G to C, at position 65, and A to G, at position 86 (Fig. 1A). The first mutation in the pro-peptide part of the signal peptide resulted in amino acid change from Ser −7 to Thr, while the second mutation changed the first amino acid of the functional mature protein from Asp1 to Gly. Until now, discovered Pina alleles have been from Pina-D1a to Pina-D1u. We are naming the new alleles identified in this study as Pina-D1v (Group 6, Table 1) and Pina-D1w (Group 7, Table 1).


Puroindoline allelic diversity in Indian wheat germplasm and identification of new allelic variants.

Kumar R, Arora S, Singh K, Garg M - Breed. Sci. (2015)

A: Sequence of Pina gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represents pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple deletions, complete deletions, and insertions are not shown here, i.e., Pina-D1b, k, r, s, u. B: Sequence of Pinb gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represent pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple substitutions, deletions, complete deletions, and insertions are not shown here, i.e., Pinb-D1h, i, j, k, m, n, o.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4542932&req=5

f1-65_319: A: Sequence of Pina gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represents pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple deletions, complete deletions, and insertions are not shown here, i.e., Pina-D1b, k, r, s, u. B: Sequence of Pinb gene showing its complete allelic diversity, including new alleles reported in this study. Letters with blue asterisk represent new alleles. Tryptophan rich domain is represented with horizontal red double arrows. Sequence between red arrowheads represents pre-peptide at the N terminal and that between red and blue arrowheads represent pro-peptide at N and C terminals. Red colored letters represent previously reported alleles. Multiple substitutions, deletions, complete deletions, and insertions are not shown here, i.e., Pinb-D1h, i, j, k, m, n, o.
Mentions: We identified six new allelic variants: two for Pina and four for Pinb (Fig. 1). The Pina and Pinb alleles resulted from SNPs in the signal peptide and functional part of the coding region, respectively. Among the two Pina alleles, one had SNP from C to T, at position 41 (Fig. 1A), in the pre-peptide part of the signal peptide that changed amino acid Ala −15 to Val (Table 1). The second allele had two mutations, G to C, at position 65, and A to G, at position 86 (Fig. 1A). The first mutation in the pro-peptide part of the signal peptide resulted in amino acid change from Ser −7 to Thr, while the second mutation changed the first amino acid of the functional mature protein from Asp1 to Gly. Until now, discovered Pina alleles have been from Pina-D1a to Pina-D1u. We are naming the new alleles identified in this study as Pina-D1v (Group 6, Table 1) and Pina-D1w (Group 7, Table 1).

Bottom Line: We classified these 82 varieties into different hardness categories with reference to international and Indian systems of classification.The majority of Indian wheat varieties were categorized as hard.This study revealed that unexplored Indian wheat germplasm can be a good source of genetic variability for both Pina and Pinb genes, helping in marker-assisted breeding and in obtaining wheat with different textural properties.

View Article: PubMed Central - PubMed

Affiliation: National Agri-Food Biotechnology Institute , Mohali-160071, Punjab , India.

ABSTRACT
Grain hardness is an important quality trait that influences product development in wheat. This trait is governed by variation in puroindoline proteins (PINA and PINB). Our study evaluated 551 Indian wheat germplasm lines for diversity in Pina and Pinb genes. Eighty-two lines were shortlisted for full length sequencing and grain hardness studies. Sequencing studies identified six unknown alleles: two for the Pina gene and four for the Pinb gene. Five of them were novel with non-synonymous changes in the corresponding amino acid sequences. Identified mutations in the deduced mature proteins and their pre- and pro-peptides influenced the hardness characteristics of the grain. We classified these 82 varieties into different hardness categories with reference to international and Indian systems of classification. The majority of Indian wheat varieties were categorized as hard. This study revealed that unexplored Indian wheat germplasm can be a good source of genetic variability for both Pina and Pinb genes, helping in marker-assisted breeding and in obtaining wheat with different textural properties.

No MeSH data available.