Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds

Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds

Duckweeds represent a small, free-floating aquatic family (Lemnaceae) of the monocot order Alismatales with the fastest growth rate among flowering plants. They comprise five genera (Spirodela, Landoltia, Lemna, Wolffiella, and Wolffia) varying in genome size and chromosome number. Spirodela polyr...

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Tác giả chính: Hoàng, Thị Như Phương
Định dạng: Research article
Ngôn ngữ:English
Được phát hành: 2022
Những chủ đề:
Duckweeds . Spirodela . Landoltia . Lemna . Karyotype evolution . Dual-color oligo-FISH . Microsatellites . Structured illumination microscopy . Wolffia . Wolffiella
Truy cập trực tuyến:http://scholar.dlu.edu.vn/handle/123456789/1030
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spelling oai:scholar.dlu.edu.vn:123456789-10302022-09-15T11:44:57Z Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds Hoàng, Thị Như Phương Duckweeds . Spirodela . Landoltia . Lemna . Karyotype evolution . Dual-color oligo-FISH . Microsatellites . Structured illumination microscopy . Wolffia . Wolffiella Duckweeds represent a small, free-floating aquatic family (Lemnaceae) of the monocot order Alismatales with the fastest growth rate among flowering plants. They comprise five genera (Spirodela, Landoltia, Lemna, Wolffiella, and Wolffia) varying in genome size and chromosome number. Spirodela polyrhiza had the first sequenced duckweed genome. Cytogenetic maps are available for both species of the genus Spirodela (S. polyrhiza and S. intermedia). However, elucidation of chromosome homeology and evolutionary chromosome rearrangements by cross-FISH using Spirodela BAC probes to species of other duckweed genera has not been successful so far. We investigated the potential of chromosome-specific oligo-FISH probes to address these topics. We designed oligo-FISH probes specific for one S. intermedia and one S. polyrhiza chromosome (Fig. 1a). Our results show that these oligo-probes cross-hybridize with the homeologous regions of the other congeneric species, but are not suitable to uncover chromosomal homeology across duckweeds genera. This is most likely due to too low sequence similarity between the investigated genera and/or too low probe density on the target genomes. Finally, we suggest genus-specific design of oligo-probes to elucidate chromosome evolution across duckweed genera. 130 15–25 2022-09-15T11:44:57Z 2022-09-15T11:44:57Z 2021 Research article Bài báo đăng trên tạp chí thuộc ISI, bao gồm book chapter http://scholar.dlu.edu.vn/handle/123456789/1030 10.1007/s00412-020-00749-2 en Chromosoma Choi C, AdamC, Cao XH, Fuchs J, Schubert I, Rokhsar D, Schmutz J, Michael TP, Mayer KFX, Messing J (2014) The Spirodela polyrhiza genome reveals insights into its neotenous reduction fast growth and aquatic lifestyle. Nat Commun 5:3311. https://doi.org/ 10.1038/ncomms4311 Wang W, Kerstetter RA,Michael TP (2011) Evolution of genome size in Duckweeds (Lemnaceae). J Bot 2011:1–9. https://doi.org/10.1155/ 2011/570319 Weisshart K, Fuchs J, Schubert V (2016) Structured illumination microscopy (SIM) and photoactivated localization microscopy (PALM) to analyze the abundance and distribution of RNA polymerase II molecules on flow-sorted arabidopsis Nuclei. Bio-protocol 6:e1725. https://doi.org/10.21769/BioProtoc.1725 Xin H, Zhang T, Wu Y, Zhang W, Zhang P, Xi M, Jiang J (2020) An extraordinarily stable karyotype of the woody Populus species revealed by chromosome painting. Plant J : Cell Mol Biol 101: 253–264. https://doi.org/10.1111/tpj.14536 Yaskolka Meir A et al (2019) A green-mediterranean diet, supplemented with Mankai Duckweed, preserves iron-homeostasis in humans and is efficient in reversal of anemia in Rats. J Nutr 149:1004–1011. https://doi.org/10.1093/jn/nxy321 Zhao Y et al (2015) Pilot-scale comparison of four duckweed strains from different genera for potential application in nutrient recovery from wastewater and valuable biomass production.
institution Thư viện Trường Đại học Đà Lạt
collection Thư viện số
language English
topic Duckweeds . Spirodela . Landoltia . Lemna . Karyotype evolution . Dual-color oligo-FISH . Microsatellites . Structured illumination microscopy . Wolffia . Wolffiella
spellingShingle Duckweeds . Spirodela . Landoltia . Lemna . Karyotype evolution . Dual-color oligo-FISH . Microsatellites . Structured illumination microscopy . Wolffia . Wolffiella
Hoàng, Thị Như Phương
Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds
description Duckweeds represent a small, free-floating aquatic family (Lemnaceae) of the monocot order Alismatales with the fastest growth rate among flowering plants. They comprise five genera (Spirodela, Landoltia, Lemna, Wolffiella, and Wolffia) varying in genome size and chromosome number. Spirodela polyrhiza had the first sequenced duckweed genome. Cytogenetic maps are available for both species of the genus Spirodela (S. polyrhiza and S. intermedia). However, elucidation of chromosome homeology and evolutionary chromosome rearrangements by cross-FISH using Spirodela BAC probes to species of other duckweed genera has not been successful so far. We investigated the potential of chromosome-specific oligo-FISH probes to address these topics. We designed oligo-FISH probes specific for one S. intermedia and one S. polyrhiza chromosome (Fig. 1a). Our results show that these oligo-probes cross-hybridize with the homeologous regions of the other congeneric species, but are not suitable to uncover chromosomal homeology across duckweeds genera. This is most likely due to too low sequence similarity between the investigated genera and/or too low probe density on the target genomes. Finally, we suggest genus-specific design of oligo-probes to elucidate chromosome evolution across duckweed genera.
format Research article
author Hoàng, Thị Như Phương
author_facet Hoàng, Thị Như Phương
author_sort Hoàng, Thị Như Phương
title Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds
title_short Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds
title_full Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds
title_fullStr Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds
title_full_unstemmed Limitation of current probe design for oligo-cross-FISH, exemplified by chromosome evolution studies in duckweeds
title_sort limitation of current probe design for oligo-cross-fish, exemplified by chromosome evolution studies in duckweeds
publishDate 2022
url http://scholar.dlu.edu.vn/handle/123456789/1030
_version_ 1768305921709047808

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