MarpolBase - MiRNAs differentially expressed in vegetative and reproductive organs of Marchantia polymorpha – insights into their expression pattern, gene structures and function.

MiRNAs differentially expressed in vegetative and reproductive organs of Marchantia polymorpha – insights into their expression pattern, gene structures and function.

Aggarwal, B., et al. · 2024 · RNA Biology research

doi:10.1080/15476286.2024.2303555 PMID:38303117 PMC10841014

Linked genes (23) 10 core 13 peripheral

Gene ID	Name	Evidence / Role	Function (this paper)
Mp1g05970	missing	experimental subject	Target of MpmiR11865*, encoding a tRNA ligase 1 protein. Its expression inversely correlates with the miRNA by RT-qPCR, with the cleavage site located in the 3'-UTR.
Mp1g15010	missing	experimental subject	Validated target of MpmiR11737a by degradome analysis, with the cleavage site mapping to its 3'-UTR. RT-qPCR shows its transcript level inversely correlates with the miRNA and is strongly upregulated in reproductive organs.
Mp1g20730	missing	experimental subject	Target of MpmiR11887, encoding a beta-tubulin protein. Shows lowest expression in antheridiophores by RT-qPCR, inversely correlated with miRNA levels.
Mp4g11670	missing	experimental subject	Host gene harboring MpmiR11796 in its 5'-UTR, encoding a protein of unknown function; the MpmiR11796 gene forms an independent transcriptional unit within it.
Mp4g20750	missing	experimental subject	Target of MpmiR11796, encoding a linker histone H1/H5 family protein. Its mRNA is expressed exclusively in antheridiophores, where the targeting miRNA is lowest.
Mp5g12920	missing	experimental subject	Host gene overlapping MpmiR11737a, encoding a chloroplast PsbP protein; MpmiR11737a transcription initiates within its intron, identified through genomic analysis.
Mp5g16770	missing	experimental subject	Second validated target of MpmiR11737a, encoding an F-box-like domain superfamily protein. Its mRNA is upregulated in reproductive organs, consistent with miRNA-mediated regulation.
Mp6g01830	missing	experimental subject	Putative host gene overlapping MpmiR11887 within its 3'-UTR, encoding a 65-amino-acid protein of unknown function.
Mp6g13460	missing	experimental subject	Target of MpmiR11865, encoding an ATPase valosin-containing protein. RT-qPCR shows inverse correlation with miRNA accumulation and the cleavage site lies within the 3'-UTR.
Mp8g07030	missing	experimental subject	Host gene containing MpmiR11737b within its 5'-UTR, encoding a protein of unknown function.
—	missing	citation comparator	Cited as an Arabidopsis miR156/157 target example for cross-species comparison.
Mp1g17590	MpMDHAR1	citation comparator	Cited as an Arabidopsis miR169 target example for cross-species comparison of cleavage-site location.
Mp6g11010	MpACTIN7	experimental tool	Used as the reference gene for RT-qPCR expression normalization in this study.
Mp1g06610	missing	citation background	Cited from prior work as an example M. polymorpha miRNA-target module (MpmiR11667.6-Mp1g06610) with a 3'-UTR cleavage site.
Mp1g07070	MpARF3	citation background	Cited from prior work as the MpmiR160 target (AUXIN RESPONSE FACTOR 3) with reproductive functions.
Mp1g24140	MpC3HDZ	citation background	Cited from prior work as the MpmiR166 target (HD-ZIPIII TF) with established developmental roles.
Mp1g06440	MpFRH1	citation background	Cited from prior work as FEW RHIZOIDS1, characterized for rhizoid and gemma production control.
—	MpMYB33 missing	citation background	Noted alongside MpR2R3-MYB21 as a previously characterized miR319-related MYB target.
Mp3g05910	MpR2R3-MYB21	citation background	Cited from prior work as the MpmiR319a/b target with developmental roles.
Mp3g17930	MpRSL1	citation background	Cited from prior work as the MpFRH1 target module controlling rhizoid production.
Mp1g10020	MpSPL1	citation background	Cited from prior work as a miRNA target module involved in controlling rhizoids, gemmae, and papillae.
Mp1g10030	MpSPL2	citation background	Cited from prior work as the MpmiR529c target (SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 2) with developmental roles.
Mp8g00880	MpVAMP71	citation background	Cited from prior work as an example M. polymorpha miRNA-target module (MpmiR11670.1-Mp8g00880).