Rafea Naffa

Dr. Rafea Naffa

Fonterra (New Zealand), Auckland, New Zealand
orcid

Research Focus & Metrics

Academic Career Length

11Years (2016-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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4 August 2020 in Organic Chemistry Frontiers
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JGJakob Gaar
Jakob Gaar
RNRafea Naffa
Rafea Naffa
MBMargaret Brimble
Margaret Brimble
Collagen and elastin are the most abundant structural proteins in animals and play an integral biological and structural role in the extracellular matrix. The biosynthesis and maturation of collagen and elastin occurs via multi-step intracellular and extracellular processes including the formation of several covalent crosslinks to stabilise their structure, confer thermal stability and provide biochemical properties to tissues. There are two major groups of crosslinks based on their formation pathways, enzymatic and non-enzymatic. The biosynthesis of enzymatic crosslinks starts with the enzymatic oxidation of lysine or hydroxylysine residues into aldehydes. These aldehdyes undergo a series of spontaneous condensation reactions with lysine, hydroxylysine or other aldehdye residues to form immature covalent crosslinks which are further matured via poorly understood mechanisms into multivalent crosslinks. While enzymatic crosslinks make up the majority of protein–protein crosslinks, the non-enzymatic unselective glycation of lysine residues via the Maillard reaction results in the formation of Advanced Glycation Endproducts (AGEs). These latter biosynthesis pathways are not fully understood as they are produced by a series of oxidative reactions between carbohydrates and collagen via Amadori rearrangements. Both covalent crosslinks and AGEs appear to correlate with several diseases such as skin and bone disorders, cancer metastasis, diabetes, Alzheimer's and cardiovascular diseases. Although several crosslinks are isolated, purified and described in collagen and elastin, only a few of them are chemically synthesized. Chemical synthesis plays an essential and important role in research providing pure crosslinks as reference materials and enabling the discovery of compounds to understand the biosynthesis of crosslinks and their properties. Synthetic crosslinks are crucial to verify the structures of collagen and elastin crosslinks where only a handful of structures have been determined by NMR spectroscopy and many other structures have only been predicted using mass spectrometry. This makes crosslinks and AGEs an interesting target for organic synthesis to produce sufficient quantities of material to enable studies on their biological significance and determine their absolute stereochemistry. The biological and chemical synthesis of both enzymatic and non-enzymatic crosslinks are extensively described in this review.

5 February 2020 in Journal of Leather Science and Engineering
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MMMegha Mehta
Megha Mehta
RNRafea Naffa
Rafea Naffa
CMCatherine Maidment
Catherine Maidment
GHGeoff Holmes
Geoff Holmes
MWMark Waterland
Mark Waterland
There is a substantial loss of value in bovine leather every year due to a leather quality defect known as “looseness”. Data show that 7% of domestic hide production is affected to some degree, with a loss of $35 m in export returns. This investigation is devoted to gaining a better understanding of tight and loose wet blue leather based on vibrational spectroscopy observations of its structural variations caused by physical and chemical changes that also affect the tensile and tear strength. Several regions from the wet blue leather were selected for analysis. Samples of wet blue bovine leather were collected and studied in the sliced form using Raman spectroscopy (using 532 nm excitation laser) and Attenuated Total Reflectance - Fourier Transform InfraRed (ATR-FTIR) spectroscopy. The purpose of this study was to use ATR-FTIR and Raman spectra to classify distal axilla (DA) and official sampling position (OSP) leather samples and then employ univariate or multivariate analysis or both. For univariate analysis, the 1448 cm− 1 (CH2 deformation) band and the 1669 cm− 1 (Amide I) band were used for evaluating the lipid-to-protein ratio from OSP and DA Raman and IR spectra as indicators of leather quality. Curve-fitting by the sums-of-Gaussians method was used to calculate the peak area ratios of 1448 and 1669 cm− 1 band. The ratio values obtained for DA and OSP are 0.57 ± 0.099, 0.73 ± 0.063 for Raman and 0.40 ± 0.06 and 0.50 ± 0.09 for ATR-FTIR. The results provide significant insight into how these regions can be classified. Further, to identify the spectral changes in the secondary structures of collagen, the Amide I region (1600–1700 cm− 1) was investigated and curve-fitted-area ratios were calculated. The 1648:1681 cm− 1 (non-reducing: reducing collagen types) band area ratios were used for Raman and 1632:1650 cm− 1 (triple helix: α-like helix collagen) for IR. The ratios show a significant difference between the two classes. To support this qualitative analysis, logistic regression was performed on the univariate data to classify the samples quantitatively into one of the two groups. Accuracy for Raman data was 90% and for ATR-FTIR data 100%. Both Raman and ATR-FTIR complemented each other very well in differentiating the two groups. As a comparison, and to reconfirm the classification, multivariate analysis was performed using Principal Component Analysis (PCA) and Linear Discriminant Analysis (LDA). The results obtained indicate good classification between the two leather groups based on protein and lipid content. Principal component score 2 (PC2) distinguishes OSP and DA by symmetrically grouping samples at positive and negative extremes. The study demonstrates an excellent model for wider research on vibrational spectroscopy for early and rapid diagnosis of leather quality. Graphical

27 November 2020 in Gels
Verified
Journal Article
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HNHon Wei Ng
Hon Wei Ng
YZYi Zhang
Yi Zhang
RNRafea Naffa
Rafea Naffa
Sujay PrabakarSujay Prabakar
Sujay Prabakar
Collagen-based hydrogels are investigated extensively in tissue engineering for their tunable physiochemical properties, biocompatibility and biodegradability. However, the effect of the integrity of the collagen triple helical structure on biodegradability is yet to be studied. In this study, we monitored the degradation of intact collagen (C-coll) and hydrolyzed collagen (D-coll) hydrogels in collagenase Clostridium histolyticum to understand their degradation process. Our results show that when peptides are present on the surface of the fibrils of D-coll hydrogels, cleavage of amide bonds occur at a much higher rate. The fibrillar structure of D-coll hydrogel results in a more pronounced breakdown of the gel network and dissolution of collagen peptides. The results from this work will improve the understanding of enzymatic degradation and the resulting bioabsorption of collagen materials used in drug delivery systems and scaffolds.

20 April 2018 in ACS Sustainable Chemistry & Engineering
Verified
Journal Article
Closed access
YZYi Zhang
Yi Zhang
BMBradley William Mansel
Bradley William Mansel
RNRafea Naffa
Rafea Naffa
SCSoshan Cheong
Soshan Cheong
YYYin Yao
Yin Yao
Sujay PrabakarSujay Prabakar
Sujay Prabakar

3 December 2019 in IEEE Access
Verified
Journal Article
Open access
MAMasood Aslam
Masood Aslam
TKTariq M. Khan
Tariq M. Khan
SNSyed Saud Naqvi
Syed Saud Naqvi
GHGeoff Holmes
Geoff Holmes
RNRafea Naffa
Rafea Naffa
Reliably and effectively detecting and classifying leather surface defects is of great importance to tanneries and industries that use leather as a major raw material such as leather footwear and handbag manufacturers. This paper presents a detailed and methodical review of the leather surface defects, their affects on leather quality grading and automated visual inspection methods for leather defect inspection. A detailed review of inspection methods based on leather defect detection using image analysis methods is presented, which are usually classified as heuristic or basic machine learning based methods. Due to the recent success of deep learning methods in various related fields, various architectures of deep learning are discussed that are tailored to image classification, detection, and segmentation. In general, visual inspection applications, where recent CNN architectures are classified, compared, and a detailed review is subsequently presented on the role of deep learning methods in leather defect detection. Finally, research guidelines are presented to fellow researchers regarding data augmentation, leather quality quantification, and simultaneous defect inspection methods, which need to be investigated in the future to make progress in this crucial area of research.

25 October 2022 in Biology
Verified
Journal Article
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ANAnushree Nagaraj
Anushree Nagaraj
AEAlaitz Etxabide
Alaitz Etxabide
RNRafea Naffa
Rafea Naffa
GZGhada Zidan
Ghada Zidan
ASAli Seyfoddin
Ali Seyfoddin
Bioprinting is an emerging technology involved in the fabrication of three-dimensional tissue constructs for the repair and regeneration of various tissues and organs. Collagen, a natural protein found abundantly in the extracellular matrix of several tissues, can be extracted from collagen-rich tissues of animals such as sheep, cows, rats, pigs, horses, birds, and marine animals. However, due to the poor printability of collagen bioinks, biocompatible collagen scaffolds that mimic the extracellular matrix (ECM) are difficult to fabricate using bioprinting techniques. Gelatin methacrylate (GelMA), a semi-synthetic polymer with tunable physical and chemical properties, has been found to be a promising biomaterial in various bioprinting applications. The printability of collagen can be improved by combining it with semi-synthetic polymers such as GelMA to develop hybrid hydrogels. Such hybrid hydrogels printed have also been identified to have enhanced mechanical properties. Hybrid GelMA meshes have not previously been prepared with collagen from ovine sources. This study provides a novel comparison between the properties of hybrid meshes with ovine skin and bovine hide collagen. GelMA (8% w/v) was integrated with three different concentrations (0.5%, 1%, and 2%) of bovine and ovine collagen forming hybrid hydrogels inks that were printed into meshes with enhanced properties. The maximum percentage of collagen suitable for integration with GelMA, forming hybrid hydrogels with a stable degradation rate was 1%. The water-soluble nature of ovine collagen promoted faster degradation of the hybrid meshes, although the structural crosslinking was identified to be higher than bovine hybrid meshes. The 1% bovine collagen hybrid meshes stood out in terms of their stable degradation rates.