Genome-wide high-throughput chromosome conformation capture analysis reveals hierarchical chromatin interactions during early somatic embryogenesis (Record no. 54475)

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fixed length control field 02569nam a2200241Ia 4500
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control field MX-MdCICY
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control field 20250625162447.0
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Transcribing agency CICY
090 ## - LOCALLY ASSIGNED LC-TYPE CALL NUMBER (OCLC); LOCAL CALL NUMBER (RLIN)
Classification number (OCLC) (R) ; Classification number, CALL (RLIN) (NR) B-20380
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Title Genome-wide high-throughput chromosome conformation capture analysis reveals hierarchical chromatin interactions during early somatic embryogenesis
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Volume/sequential designation Plant Physiology, 193(1), p.555-577, 2023
520 3# - SUMMARY, ETC.
Summary, etc. Somatic embryogenesis (SE), like zygotic embryo development, is a progressive process. Early SE is the beginning of a switch from a somatic to an embryogenic state and is an important stage for initiating chromatin reprogramming of SE. Previous studies suggest that changes in chromatin accessibility occur during early SE, although information on the 3D structure of chromatin is not yet available. Here, we present a chromosome-level genome assembly of longan (Dimocarpus longan)using PacBio combined with high-through chromosome conformation capture scaffolding, which resulted in a 446 Mb genome assembly anchored onto 15 scaffolds. During early SE, chromatin was concentrated and then decondensed, and a large number of long terminal repeat retrotransposons (LTR-RTs)were enriched in the local chromatin interaction region, suggesting LTR-RTs were involved in chromatin reorganization. Early SE was accompanied by the transformation from A to B compartments, and the interactions between B compartments were enhanced. Results from chromatin accessibility, monomethylation of histone H3 at lysine 4 (H3K4me1)modification, and transcription analyses further revealed a gene regulatory network for cell wall thickening during SE. Particularly, we found that the H3K4me1 differential peak binding motif showed abnormal activation of ethylene response factor transcription factors and participation in SE. The chromosome-level genomic and multiomics analyses revealed the 3D conformation of chromatin during early SE, providing insight into the molecular mechanisms underlying cell wall thickening and the potential regulatory networks of TFs during early SE in D. longan. These results provide additional clues for revealing the molecular mechanisms of plant SE.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Chen, Y.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Xie, D.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Ma, X.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Xue, X.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Liu, M.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Xiao, X.
700 12 - ADDED ENTRY--PERSONAL NAME
Personal name Lin, Y.
856 40 - ELECTRONIC LOCATION AND ACCESS
Uniform Resource Identifier <a href="https://drive.google.com/file/d/16Hc9Z-c0I-3Opm0vW_VsTte9DeIEEMXU/view?usp=drivesdk">https://drive.google.com/file/d/16Hc9Z-c0I-3Opm0vW_VsTte9DeIEEMXU/view?usp=drivesdk</a>
Public note Para ver el documento ingresa a Google con tu cuenta: @cicy.edu.mx
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Source of classification or shelving scheme Clasificación local
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  Clasificación local     Ref1 CICY CICY Documento préstamo interbibliotecario 25.06.2025   B-20380 25.06.2025 25.06.2025 Documentos solicitados