The neuroblast timer gene nubbin exhibits functional redundancy with gap genes to regulate segment identity in Tribolium

The neuroblast timer genes hunchback, Krüppel, nubbin, and castor are expressed in temporal sequence in neural stem cells, and in corresponding spatial sequence along the Drosophila blastoderm. As canonical gap genes, hunchback and Krüppel play a crucial role in insect segmentation, but the roles of nubbin and castor in this process remain ambiguous. We have investigated the expression and functions of nubbin and castor during segmentation in the beetle Tribolium. We show that Tc-hunchback, Tc-Krüppel, Tc-nubbin and Tc-castor are expressed sequentially in the segment addition zone, and that Tc-nubbin regulates segment identity redundantly with two previously described gap/gap-like genes, Tc-giant and Tc-knirps. Simultaneous knockdown of Tc-nubbin, Tc-giant and Tc-knirps results in the formation of ectopic legs on abdominal segments. This homeotic transformation is caused by loss of abdominal Hox gene expression, likely due to expanded Tc-Krüppel expression. Our findings support the theory that the neuroblast timer series was co-opted for use in insect segment patterning, and contribute to our growing understanding of the evolution and function of the gap gene network outside of Drosophila.

Structural Requirements of the Phytoplasma Effector Protein SAP54 for Causing Homeotic Transformation of Floral Organs

Phytoplasmas are intracellular bacterial plant pathogens that cause devastating diseases in crops and ornamental plants by the secretion of effector proteins. One of these effector proteins, termed SECRETED ASTER YELLOWS WITCHES’ BROOM PROTEIN 54 (SAP54), leads to the degradation of a specific subset of floral homeotic proteins of the MIKC-type MADS-domain family via the ubiquitin-proteasome pathway. In consequence, the developing flowers show the homeotic transformation of floral organs into vegetative leaf-like structures. The molecular mechanism of SAP54 action involves binding to the keratin-like domain of MIKC-type proteins and to some RAD23 proteins, which translocate ubiquitylated substrates to the proteasome. The structural requirements and specificity of SAP54 function are poorly understood, however. Here, we report, based on biophysical and molecular biological analyses, that SAP54 folds into an α-helical structure. Insertion of helix-breaking mutations disrupts correct folding of SAP54 and compromises SAP54 binding to its target proteins and, concomitantly, its ability to evoke disease phenotypes in vivo. Interestingly, dynamic light scattering data together with electrophoretic mobility shift assays suggest that SAP54 preferentially binds to multimeric complexes of MIKC-type proteins rather than to dimers or monomers of these proteins. Together with data from literature, this finding suggests that MIKC-type proteins and SAP54 constitute multimeric α-helical coiled coils. Our investigations clarify the structure-function relationship of an important phytoplasma effector protein and may thus ultimately help to develop treatments against some devastating plant diseases.

Studies on tail regeneration and homeotic transformation in anuran tadpoles

Anuran tadpoles are excellent models for regeneration studies. The tail, an organ essential for swimming for the aquatic tadpole, regenerates completely following injury or amputation. However, treatment with the morphogen, vitamin A or retinoic acid inhibits normal tail regeneration and induces homeotic transformation of tail to limbs. This phenomenon was discovered for the first time in the Indian marbled balloon frog Uperodon systoma in the Developmental Biology laboratory of Utkal University (Odisha, India) in the year 1992. In this paper, we present the results of morphological, histological, biochemical and molecular (immonohistochemistry) investigations of vitamin A induced homeotic transformation in different anuran species. In addition, we discuss the putative role of fibroblast growth factor 1 during spinal cord regeneration in the tadpoles of the Indian tree frog, Polypedates maculatus, an ideal model for regeneration studies in an Indian context.

Introduction of Developmental Biology at Utkal University, (Odisha, India)

The paper deals with the background and the establishment of a Developmental Biology Laboratory in Utkal University in Odisha state. It describes the process from a humble beginning with limited facilities into a leading research centre, initially for amphibians and later for the endangered olive ridley (Lepidochelys olivacea) turtle. Starting from the biology, reproduction and development in many anurans, the laboratory took up research on regeneration, especially on super-regeneration in tadpoles under the influence of morphogens such as vitamin A (retinoids). Treatment with vitamin A after amputation of the tail inhibited tail regeneration but unexpectedly induced homeotic transformation of tails into limbs in many anurans, starting with the marbled balloon frog Uperodon systoma. This was the first observation of homeotic transformation in any vertebrate. The laboratory continues research on histological and molecular aspects of this phenomenon. In addition, taking advantage of the largest rookery of olive ridley sea turtles in Gahirmatha, in the same state the laboratory has contributed significantly to the biology, breeding patterns, development and especially the temperature-dependent sex determination phenomenon (TSD). This research was extended to biochemical and ultrastructural aspects during development for the first time for any sea turtle. The laboratory has contributed significantly to the conservation of olive ridleys as well as the saltwater crocodile (Crocodylus porosus). Recognition and awards for the laboratory have been received from both national and international bodies.

Structural requirements of the phytoplasma effector protein SAP54 for causing homeotic transformation of floral organs

SummaryPhytoplasmas are intracellular bacterial plant pathogens that cause devastating diseases in crops and ornamental plants by the secretion of effector proteins. One of these effector proteins, termed SECRETED ASTER YELLOWS-WITCHES’ BROOM PROTEIN 54 (SAP54), leads to the degradation of a specific subset of floral homeotic proteins of the MIKC-type MADS-domain family via the ubiquitin-proteasome pathway. In consequence, the developing flowers show the homeotic transformation of floral organs into vegetative leaf-like structures. The molecular mechanism of SAP54 action involves physical binding to the keratin-like K-domain of MIKC-type proteins, and to some RAD23 proteins, which translocate ubiquitylated substrates to the proteasome. The structural requirements and specificity of SAP54 function are poorly understood, however. Here we report, based on biophysical and molecular biological analyses, that SAP54 folds into α-helical structures. We also show that the insertion of helix-breaking mutations disrupts correct folding of SAP54, which interferes with the ability of SAP54 to bind to its target proteins and to cause disease phenotypes in vivo. Surprisingly, dynamic light scattering data together with electrophoretic mobility shift assays suggest that SAP54 preferentially binds to multimeric complexes of MIKC-type proteins rather than to dimers or monomers of these proteins. Together with literature data this finding suggests that MIKC-type proteins and SAP54 constitute multimeric α-helical coiled-coils, possibly also involving other partners such as RAD23 proteins. Our investigations clarify the structure-function relationship of an important phytoplasma effector protein and thus may ultimately help to develop treatments against some devastating plant diseases.SIGNIFICANCE STATEMENTPhytoplasmas are bacterial plant pathogens that cause devastating diseases in crops and ornamental plants by the secretion of effector proteins such as SAP54, which leads to the degradation of some floral homeotic proteins. Our study clarifies the structural requirements of SAP54 function and illuminates the molecular mode of interaction and thus may ultimately help to develop treatments against some devastating plant diseases.

Integrated epigenome, exome and transcriptome analyses reveal molecular subtypes and homeotic transformation in uterine fibroids

ABSTRACTUterine fibroids are benign myometrial smooth muscle tumors of unknown etiology that when symptomatic are the most common indication for hysterectomy in the USA. We conducted an integrated analysis of fibroids and adjacent normal myometria by whole exome sequencing, Infinium MethylationEPIC array, and RNA-sequencing. Unsupervised clustering by DNA methylation segregated normal myometria from fibroids, and further separated the fibroids into subtypes marked byMED12mutation,HMGA2activation (HMGA2hi) andHMGA1activation (HMGA1hi). Upregulation ofHMGA2expression inHMGA2hi fibroids did not always appear to be dependent on translocation, as has been historically described, and was associated with hypomethylation in theHMGA2gene body. Furthermore, we found that expression ofHOXA13was highly upregulated in fibroids and that overexpression ofHOXA13in a myometrial cell line induced expression of genes classically associated with uterine fibroids. Transcriptome analyses of the most differentially expressed genes between cervix and myometrium also showed that uterine fibroids and normal cervix clustered together and apart from normal myometria. Together, our integrated analysis shows a role for epigenetic modification in fibroid biology and strongly suggests that homeotic transformation of myometrium cells to a more cervical phenotype is important for the etiology of the disease.