Sanger Sequencing and Genomic Analysis of Medicago

PCR products were sequenced via Sanger sequencing using a capillary ABI 3730xl DNA Analyser (Applied Biosystems) at Genetic Analysis Services (GAS), Department of Anatomy, University of Otago (New Zealand). Geneious^® (Geneious Pro software, Biomatters Ltd., Auckland, New Zealand) version 10.2.3 was used to analyse sequencing data and investigate/compare genome sequences between species to carry out sequence analysis. For analyses involving the Medicago genome, the latest version of the Medicago truncatula genome (Medtr 4.0v2) with annotations was used as a reference [34 (link)]. Protein alignment was performed using Geneious^® MUSCLE Alignment with default settings and the domain search was performed in http://www.ebi.ac.uk/interpro/ (accessed on 6 December 2021) Fe_bilin_red domain (from 63aa to 280aa).

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Perez-Santangelo S., Napier N., Robson F., Weller J.L., Bond D.M, & Macknight R.C. (2022). A Point Mutation in Phytochromobilin synthase Alters the Circadian Clock and Photoperiodic Flowering of Medicago truncatula. Plants, 11(3), 239.

Publication 2022

ABI 3730xl DNA Analyser

Bilin Capillary Genetic services Genome Medicago Medicago truncatula Muscle Protein Sequence analysis

Corresponding Organization : University of Otago

Other organizations : Norwich Research Park, John Innes Centre, University of Tasmania

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Variable analysis

independent variables

None explicitly mentioned

dependent variables

None explicitly mentioned

control variables

Kept constant: Sanger sequencing using a capillary ABI 3730xl DNA Analyser (Applied Biosystems) at Genetic Analysis Services (GAS), Department of Anatomy, University of Otago (New Zealand)
Kept constant: Geneious® (Geneious Pro software, Biomatters Ltd., Auckland, New Zealand) version 10.2.3 was used to analyse sequencing data and investigate/compare genome sequences between species to carry out sequence analysis
Kept constant: The latest version of the Medicago truncatula genome (Medtr 4.0v2) with annotations was used as a reference

controls

No positive or negative controls were explicitly mentioned in the provided information.

Annotations

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